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Assess whether we should bring kallisto fpkms for transcripts to the data prod part #32

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pcm32 opened this issue May 19, 2022 · 1 comment

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@pcm32
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pcm32 commented May 19, 2022

Currently for transcripts quantification from kallisto we are only bringing tpms and not fpkms. Please asses whether fpkms are available or not on ISL for transcripts, and then if so add them to the atlas data prod part here https://github.com/ebi-gene-expression-group/bulk-recalculations/blob/feature/reprocess-rules/Snakefile#L767

@pcm32 pcm32 changed the title Asses whether we should bring kallisto fpkms for transcripts to the data prod part Assess whether we should bring kallisto fpkms for transcripts to the data prod part May 19, 2022
@pmb59
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pmb59 commented May 19, 2022

transcripts.fpkm.kallisto.tsv are available, but have not been reported by Atlas so far. I will add a new feature to allow this.

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