2014 JCVI Summer Genomics Workshop

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Contents

1 Talks
- 1.1 iPlant Data Store
- 1.2 CoGe
  - 1.2.1 Loading your own genome
2 Links

Talks

iPlant Data Store

CoGe

Keynote: http://de.iplantcollaborative.org/dl/d/51782D3C-3BCE-413D-BB30-6F2AB90CB1D7/2014_JCVI_CoGe.key

Loading your own genome

E. coli genome: http://de.iplantcollaborative.org/dl/d/555B53F9-E738-4951-85A3-421E23804DFA/genome_7112.faa
E. coli annotations: http://de.iplantcollaborative.org/dl/d/C1ACC5C3-1E0B-409B-8A91-C969943F41F8/7122-structural-annotations.gff
E. coli expression data: http://de.iplantcollaborative.org/dl/d/F1EE1A86-F91A-46E7-92D6-A25EE78E3DA3/7112-lo.csv
E. coli variant data: http://de.iplantcollaborative.org/dl/d/B4040AC9-74A7-4E3E-B074-F23E1D70823E/7112-demo.vcf.gz
E. coli bam alignment data: http://de.iplantcollaborative.org/dl/d/D0FC54E4-6DA6-4604-BE19-81F1D33B5350/7112-alignment.bam

Links

iPlant Learning Center: http://www.iplantcollaborative.org/learning-center
iPlant Data Store Quick Start: https://pods.iplantcollaborative.org/wiki/display/start/Data+Store+Quick+Start
iPlant: Using i-commands (command line access to the Data Store): https://pods.iplantcollaborative.org/wiki/display/start/Using+icommands

Loading private data in CoGe: http://www.youtube.com/watch?v=JPZ8IrPnh_8
RNASeq with EPIC-CoGe: https://www.youtube.com/watch?v=3fNyHGB02dM

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