User: rthapa

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rthapa0
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Posts by rthapa

<prev • 5 results • page 1 of 1 • next >
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txt files of upregulated and down regulated genes
... Hi, My apology if it appears to be a silly question. I wanted to save the files of upregulated and downregulated genes from DESeq2. But both of my files have lfc value of both positive and negative. I think the upregulated genes should have positive lfc value and downregulated genes should have nega ...
rna-seq written 1 day ago by rthapa0 • updated 1 day ago by WouterDeCoster24k
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best value of lfc threshold
... What is the best value to assign for lfc threshold while using DESeq2 package? With 1 as lfc threshold, I got more than 3000 upregulated genes. Any suggestion please? Thanks ...
rna-seq written 3 days ago by rthapa0 • updated 3 days ago by Kevin Blighe11k
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DESeq2 lfc shrinkage
... Hi! How can we determine the coefficient value while applying lfcShrink() with the coefficient argument? Thanks ...
rna-seq written 3 days ago by rthapa0
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truncated bam file
... Hi! I have got a sam file which looks good but when I convert it to bam file, the file became truncated. The tail of bam file looks weird. Could anyone suggest me what could be the reason? Thanks ...
rna-seq written 6 days ago by rthapa0 • updated 6 days ago by Jean-Karim Heriche14k
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transcript count after string tie merge
... Hi, I am trying to get transcript counts with stringtie merge command. I have set of gtf output, when I checked the transcript counts of individual gtf files, I got some values of transcript counts but when I used strigtie merge command to merge all the stringtie files, I got merged output file but ...
stringtie rna-seq written 9 days ago by rthapa0 • updated 7 days ago by Kevin Blighe11k

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