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Create Priority List #44

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LucyHut opened this issue Mar 5, 2018 · 2 comments
Open

Create Priority List #44

LucyHut opened this issue Mar 5, 2018 · 2 comments
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@jhgraber
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@LucyHut
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LucyHut commented Mar 5, 2018

Please List all the tools included in this repos by precedence ....
@jhgraber
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Cufflinks needs to be added. This is a fairly critical package for us.

So then for the RNAseq pipelines, besides cufflinks, we need the following to be stable and ready to go as soon as possible:
Hisat2
FastQC
TrimGalore
Trimmomatic
Kallisto
SAMtools
Picard tools
and within R, we will need DESeq2 and EdgeR

@LucyHut
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LucyHut commented Mar 12, 2018 •
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Done and tested:

  1. Cufflinks
  2. FastQC
  3. Hisat2
  4. Kallisto
  5. Trimgalore
  6. R (DESeq2-1.18.1 and edge-2.10.0 are both installed)
  7. Samtools
  8. Picard tools
  9. Trimmomatic

@LucyHut LucyHut added this to the In Progress milestone Mar 19, 2018
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