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nf-core output: add annotations for featureCounts files #178

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allaway opened this issue Apr 26, 2024 · 0 comments · May be fixed by #186
Open

nf-core output: add annotations for featureCounts files #178

allaway opened this issue Apr 26, 2024 · 0 comments · May be fixed by #186
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@allaway
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allaway commented Apr 26, 2024

Under the STAR-salmon directory in nf-core/rnaseq output, there is a featureCounts directory. These files are per-sample files and also have gene abundance information. e,g, https://www.synapse.org/#!Synapse:syn38868256

I recently shared the data with someone who requested the featureCounts instead of the Salmon output, because they preferred to use that for differential expression. So, we should add these files to the annotation utils if people are likely to use them.

@anngvu anngvu linked a pull request Aug 15, 2024 that will close this issue
@anngvu anngvu linked a pull request Aug 15, 2024 that will close this issue
@anngvu anngvu moved this to In Progress in NF-OSI Sprints Aug 15, 2024
@anngvu anngvu self-assigned this Aug 15, 2024
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