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Add instruction on how to ingest data
Add data back to the repo for ease of use
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‎README.md‎

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@@ -27,3 +27,9 @@ The client is a [Vue CLI](https://cli.vuejs.org/) based application. All Vue-CLI
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#### linting
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* `npm run lint`
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### Data ingestion
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* In the same python envrionment as the server
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* Navigate to `server/data`
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* `export GIRDER_MONGO_URI=mongodb://localhost:27017/girder-resonanteco` if you db is not the default girder
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* execute `python ingest.py ./data`

‎server/data/data/NGEE_ResEco_36metagenomes_IMGM_summary.txt‎

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Sequencing Project ID taxon_oid Domain Sequencing Status Study Name Genome Name / Sample Name Sequencing Center IMG Genome ID Genome Size Gene Count GC Coding Base Count % CDS % RNA % w/ Func Pred % w/o function prediction % COG % Pfam % Enzyme % KEGG % Not KEGG % KO % Not KO % MetaCyc % Not MetaCyc %
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1016564 3300025619 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-1 deep-072012 DOE Joint Genome Institute (JGI) 3300025619 343494568 719553 62.13026 99.86 99.5 0.5 59.03 40.47 52.17 50.16 22.6 22.71 76.8 37.51 61.99 14.35 85.16
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1016567 3300025509 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-1 shallow-072012 DOE Joint Genome Institute (JGI) 3300025509 230634214 539141 63.39387 99.83 99.56 0.44 62.99 36.57 55.99 52.09 24.66 25.74 73.82 41.11 58.45 16 83.56
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1016570 3300025579 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-2 deep-072012 DOE Joint Genome Institute (JGI) 3300025579 297755502 601494 62.8208 99.88 99.54 0.46 60.06 39.48 53.15 51.3 22.83 23.05 76.48 38.13 61.41 14.51 85.03
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1016573 3300025494 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-2 shallow-072012 DOE Joint Genome Institute (JGI) 3300025494 212067953 515934 60.52593 99.8 99.54 0.46 60.14 39.4 52.59 49.14 23.02 23.83 75.71 38.66 60.88 14.62 84.93
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1016576 3300025581 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-3 deep-072012 DOE Joint Genome Institute (JGI) 3300025581 291770981 600506 61.41327 99.85 99.46 0.54 57.8 41.66 50.96 49.32 21.71 21.72 77.74 36.18 63.28 13.75 85.71
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1016579 3300025464 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-3 shallow-072012 DOE Joint Genome Institute (JGI) 3300025464 183045002 453510 63.66658 99.84 99.59 0.41 61.12 38.47 54.01 49.7 24 24.52 75.06 39.4 60.19 15.43 84.16
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1016582 3300025533 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-1 deep-072012 DOE Joint Genome Institute (JGI) 3300025533 272675072 567003 56.91836 99.81 99.39 0.61 62.34 37.06 55.54 53.4 24.55 24.63 74.77 40.55 58.84 15.58 83.81
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1016585 3300025527 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-1 shallow-072012 DOE Joint Genome Institute (JGI) 3300025527 250100586 555721 63.11222 99.86 99.58 0.42 59.42 40.16 52.05 49.3 22.53 22.8 76.78 37.43 62.15 14.34 85.23
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1016588 3300025475 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-2 deep-072012 DOE Joint Genome Institute (JGI) 3300025475 213652129 466805 61.67306 99.8 99.5 0.5 58.63 40.87 51.19 48.98 21.95 22.14 77.36 36.61 62.88 13.95 85.55
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1016591 3300025427 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-2 shallow-072012 DOE Joint Genome Institute (JGI) 3300025427 137768778 347960 60.15647 99.68 99.41 0.59 57.11 42.29 49.05 46.09 21.52 22.2 77.21 36.3 63.11 13.47 85.94
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1016594 3300025474 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-3 deep-072012 DOE Joint Genome Institute (JGI) 3300025474 204127190 458077 61.64556 99.81 99.53 0.47 58.15 41.38 50.45 48.13 21.8 22.12 77.41 36.31 63.22 13.9 85.63
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1016597 3300025386 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-3 shallow-072012 DOE Joint Genome Institute (JGI) 3300025386 120229439 272673 54.06102 99.64 99.32 0.68 52.17 47.16 44.64 42.44 19.77 20.63 78.69 33.13 66.2 12.6 86.73
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1016600 3300025505 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 53-1 deep-072012 DOE Joint Genome Institute (JGI) 3300025505 225914444 534916 62.92191 99.81 99.47 0.53 62.57 36.9 56.35 51.95 25.5 26.41 73.06 41.82 57.65 16.51 82.96
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1016603 3300025504 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 53-1 shallow-072012 DOE Joint Genome Institute (JGI) 3300025504 234727299 543204 64.29774 99.82 99.51 0.49 60.85 38.66 54.22 50.49 23.78 24.28 75.23 38.96 60.55 15.38 84.13
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1016606 3300025544 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 53-2 deep-072012 DOE Joint Genome Institute (JGI) 3300025544 251943370 571108 63.12506 99.83 99.5 0.5 61.65 37.85 55.29 51.56 24.42 25.16 74.34 40.1 59.4 15.85 83.65
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1016609 3300025625 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 53-2 shallow-072012 DOE Joint Genome Institute (JGI) 3300025625 327706844 729081 65.06968 99.84 99.53 0.47 60.28 39.24 53.5 50.15 22.92 23.49 76.04 37.96 61.56 14.79 84.74
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1016612 3300025664 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 53-3 deep-072012 DOE Joint Genome Institute (JGI) 3300025664 416902019 832732 62.72566 99.85 99.4 0.6 61.7 37.69 55.43 52.94 24.45 25.02 74.37 40.09 59.31 15.72 83.68
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1016615 3300025588 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 53-3 shallow-072012 DOE Joint Genome Institute (JGI) 3300025588 272039820 603904 64.68009 99.85 99.53 0.47 60.26 39.27 53.33 50.19 23.08 23.43 76.09 37.84 61.69 14.96 84.56
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1016618 3300025484 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210 deep-092012 DOE Joint Genome Institute (JGI) 3300025484 272728111 514881 63.46983 99.87 99.46 0.54 59.76 39.7 53.34 51.69 22.39 22.45 77.01 37.63 61.83 14.18 85.28
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1016621 3300025482 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210 shallow-092012 DOE Joint Genome Institute (JGI) 3300025482 213600239 492651 62.09616 99.84 99.56 0.44 60.22 39.33 53.14 49.87 23.32 23.99 75.57 38.96 60.6 14.95 84.61
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1016624 3300025481 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-2 deep-092012 DOE Joint Genome Institute (JGI) 3300025481 253551218 469381 61.87293 99.86 99.44 0.56 59.51 39.93 52.84 51.57 22.06 22.25 77.19 37.36 62.07 13.95 85.49
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1016627 3300025457 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-2 shallow-092012 DOE Joint Genome Institute (JGI) 3300025457 186289127 425182 62.01839 99.83 99.54 0.46 60.08 39.46 53.16 49.98 23.17 23.94 75.59 38.86 60.68 14.9 84.63
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1016630 3300025553 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-3 deep-092012 DOE Joint Genome Institute (JGI) 3300025553 294247242 579287 62.35851 99.85 99.45 0.55 57.77 41.68 51.05 49.51 21.39 21.52 77.93 36.13 63.32 13.49 85.97
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1016633 3300025604 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-3 shallow-092012 DOE Joint Genome Institute (JGI) 3300025604 296519657 647456 63.12672 99.85 99.53 0.47 61.2 38.34 54.22 51.27 23.5 24.32 75.21 39.3 60.24 15.19 84.34
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1016636 3300025499 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-1 deep-092012 DOE Joint Genome Institute (JGI) 3300025499 233111880 510692 54.80838 99.77 99.36 0.64 60.32 39.05 53.28 50.85 23.89 23.93 75.44 39.16 60.21 15.18 84.18
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1016639 3300025443 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-1 shallow-092012 DOE Joint Genome Institute (JGI) 3300025443 164989706 371572 58.75805 99.75 99.4 0.6 60.78 38.62 53.63 50.6 23.73 23.94 75.46 39.12 60.28 15.21 84.19
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1016642 3300025495 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-2 deep-092012 DOE Joint Genome Institute (JGI) 3300025495 248128595 516906 61.39249 99.81 99.39 0.61 63.22 36.17 56.57 53.6 25.14 25.69 73.7 41.77 57.63 16.05 83.34
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1016645 3300025461 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-2 shallow-092012 DOE Joint Genome Institute (JGI) 3300025461 197774897 426388 62.12318 99.79 99.46 0.54 59.05 40.4 51.56 49.3 22.1 22.49 76.97 37.07 62.39 13.89 85.57
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1016648 3300025548 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-3 deep-092012 DOE Joint Genome Institute (JGI) 3300025548 260985971 568753 61.40203 99.81 99.43 0.57 61.61 37.82 54.59 51.9 24.55 24.73 74.7 40.37 59.06 15.62 83.81
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1016651 3300025479 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-3 shallow-092012 DOE Joint Genome Institute (JGI) 3300025479 223226873 489250 63.18028 99.81 99.51 0.49 60.01 39.5 52.43 49.8 22.75 23.12 76.39 38.06 61.46 14.27 85.24
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1016654 3300025627 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample F53-1 deep-092012 DOE Joint Genome Institute (JGI) 3300025627 350362487 700375 62.60225 99.84 99.45 0.55 61.3 38.14 54.68 52.61 23.12 23.67 75.78 38.46 60.99 14.88 84.57
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1016657 3300025633 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample F53-1 shallow-092012 DOE Joint Genome Institute (JGI) 3300025633 332185872 725031 62.56757 99.84 99.5 0.5 58.72 40.78 51.46 49.11 22.07 22.43 77.07 36.69 62.81 14.18 85.32
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1016660 3300025634 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample F53-2 shallow-092012 DOE Joint Genome Institute (JGI) 3300025634 342022794 750358 61.56762 99.82 99.46 0.54 57.48 41.97 49.98 47.96 21.34 21.71 77.74 35.57 63.89 13.69 85.76
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1016663 3300025703 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample F52-2 deep-092012 DOE Joint Genome Institute (JGI) 3300025703 473236989 947465 60.49941 99.84 99.36 0.64 59.54 39.82 52.49 50.93 22.67 23.12 76.23 37.62 61.74 14.51 84.85
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1016666 3300025679 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample F53-3 deep-092012 DOE Joint Genome Institute (JGI) 3300025679 474337048 871489 60.24595 99.84 99.3 0.7 62.07 37.23 55.66 54.27 23.6 24.43 74.87 39.26 60.03 15.25 84.05
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1016669 3300025574 Metagenome Permanent Draft Arctic peat soil microbial communities from the Barrow Environmental Observatory site, Barrow, Alaska, USA Arctic peat soil from Barrow, Alaska - NGEE Surface sample F53-3 shallow DOE Joint Genome Institute (JGI) 3300025574 284630148 584099 60.37871 99.82 99.4 0.6 58.78 40.62 51.5 50.06 21.81 22.09 77.31 36.07 63.33 13.95 85.45

‎server/data/data/NGEE_ResEco_36metagenomes_meta.txt‎

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# Sequencing Project ID taxon_oid Genome Name / Sample Name Sequencing Field Location Transect Lat Long Elevation
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18 1016564 3300025619 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-1 deep-072012 Metagenome FCP Site0 71.27848 -156.61305 5.01
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19 1016567 3300025509 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-1 shallow-072012 Metagenome FCP Site0 71.27848 -156.61305 5.01
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20 1016570 3300025579 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-2 deep-072012 Metagenome FCP Site0 71.27848 -156.61305 5.01
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21 1016573 3300025494 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-2 shallow-072012 Metagenome FCP Site0 71.27848 -156.61305 5.01
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22 1016576 3300025581 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-3 deep-072012 Metagenome FCP Site0 71.27848 -156.61305 5.01
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23 1016579 3300025464 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-3 shallow-072012 Metagenome FCP Site0 71.27848 -156.61305 5.01
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24 1016582 3300025533 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-1 deep-072012 Metagenome LCP Site0 71.28017 -156.61537 5.072
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25 1016585 3300025527 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-1 shallow-072012 Metagenome LCP Site0 71.28017 -156.61537 5.072
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26 1016588 3300025475 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-2 deep-072012 Metagenome LCP Site0 71.28017 -156.61537 5.072
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27 1016591 3300025427 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-2 shallow-072012 Metagenome LCP Site0 71.28017 -156.61537 5.072
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28 1016594 3300025474 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-3 deep-072012 Metagenome LCP Site0 71.28017 -156.61537 5.072
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29 1016597 3300025386 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-3 shallow-072012 Metagenome LCP Site0 71.28017 -156.61537 5.072
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30 1016600 3300025505 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 53-1 deep-072012 Metagenome HCP Site0 71.277191 -156.611279 5.374
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31 1016603 3300025504 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 53-1 shallow-072012 Metagenome HCP Site0 71.277191 -156.611279 5.374
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32 1016606 3300025544 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 53-2 deep-072012 Metagenome HCP Site0 71.277191 -156.611279 5.374
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33 1016609 3300025625 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 53-2 shallow-072012 Metagenome HCP Site0 71.277191 -156.611279 5.374
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34 1016612 3300025664 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 53-3 deep-072012 Metagenome HCP Site0 71.277191 -156.611279 5.374
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35 1016615 3300025588 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 53-3 shallow-072012 Metagenome HCP Site0 71.277191 -156.611279 5.374
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36 1016618 3300025484 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210 deep-092012 Metagenome FCP Site0 71.27848 -156.61305 5.01
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37 1016621 3300025482 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210 shallow-092012 Metagenome FCP Site0 71.27848 -156.61305 5.01
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38 1016624 3300025481 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-2 deep-092012 Metagenome FCP Site0 71.27848 -156.61305 5.01
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39 1016627 3300025457 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-2 shallow-092012 Metagenome FCP Site0 71.27848 -156.61305 5.01
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40 1016630 3300025553 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-3 deep-092012 Metagenome FCP Site0 71.27848 -156.61305 5.01
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41 1016633 3300025604 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 210-3 shallow-092012 Metagenome FCP Site0 71.27848 -156.61305 5.01
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42 1016636 3300025499 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-1 deep-092012 Metagenome LCP Site0 71.28017 -156.61537 5.072
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43 1016639 3300025443 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-1 shallow-092012 Metagenome LCP Site0 71.28017 -156.61537 5.072
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44 1016642 3300025495 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-2 deep-092012 Metagenome LCP Site0 71.28017 -156.61537 5.072
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45 1016645 3300025461 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-2 shallow-092012 Metagenome LCP Site0 71.28017 -156.61537 5.072
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46 1016648 3300025548 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-3 deep-092012 Metagenome LCP Site0 71.28017 -156.61537 5.072
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47 1016651 3300025479 Arctic peat soil from Barrow, Alaska - NGEE Surface sample 415-3 shallow-092012 Metagenome LCP Site0 71.28017 -156.61537 5.072
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48 1016654 3300025627 Arctic peat soil from Barrow, Alaska - NGEE Surface sample F53-1 deep-092012 Metagenome HCP Site0 71.277191 -156.611279 5.374
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49 1016657 3300025633 Arctic peat soil from Barrow, Alaska - NGEE Surface sample F53-1 shallow-092012 Metagenome HCP Site0 71.277191 -156.611279 5.374
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50 1016660 3300025634 Arctic peat soil from Barrow, Alaska - NGEE Surface sample F53-2 shallow-092012 Metagenome HCP Site0 71.277191 -156.611279 5.374
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51 1016663 3300025703 Arctic peat soil from Barrow, Alaska - NGEE Surface sample F52-2 deep-092012 Metagenome HCP Site0 71.277191 -156.611279 5.374
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52 1016666 3300025679 Arctic peat soil from Barrow, Alaska - NGEE Surface sample F53-3 deep-092012 Metagenome HCP Site0 71.277191 -156.611279 5.374
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53 1016669 3300025574 Arctic peat soil from Barrow, Alaska - NGEE Surface sample F53-3 shallow Metagenome HCP Site0 71.277191 -156.611279 5.374

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