In order to get 1:1 matching between genes in Roberto’s gene counts matrix and Emma’s gene counts matrix, they need to be the same type of identifier. Most genes in Emma’s are “LOC” and Roberto’s are “CGI”
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Exploring nf-core differential abundance workflow
We want to test out this nf-core workflow: https://github.com/nf-core/differentialabundance for our RNAseq data output.
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Re-run FetchNGS for Cvirg_Perkinsus_RNAseq
I realized I made a couple mistakes in getting the data downloaded for the Perkinsus RNAseq reanalysis.
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Repoint nf-core projectDir to srlab directory
Purpose The purpose of this post is to describe how to redirect the projectDir when running an nf-core pipeline on Klone. This came up when I attempted to run the methylseq pipeline for the first time and got a disk quota exceeded error (https://github.com/RobertsLab/resources/issues/2045). This happened because nextflow was trying...
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Run methylseq on Klone
Purpose
Related to this GitHub issue: https://github.com/RobertsLab/resources/issues/2045#issuecomment-2521028376
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