Rimjhim Roy Choudhury

icon indicating a website link https://rimjhimroy.github.io/ icon indicating an email [email protected]

icon company UniFR icon location Switzerland icon location Bioinfo: Python, R, bash

Results 3 issues of Rimjhim Roy Choudhury

Gusher producing invalid feature coordinates

1 comment

Hello, I tried to incorporate UTRs with GUSHR using the `--addUTR=on` option: ``` braker.pl --genome=$curr/Ref/$Ref.softmasked.fasta --addUTR=on --softmasking \ --bam=$bam --workingdir=$Ref \ --AUGUSTUS_hints_preds=$curr/BRAKER/$Ref/augustus.hints.gtf --cores=24 \ --skipAllTraining --species=$Ref ``` I found that...

bug

Plot with more than eight colors

1 comment

Hi, I am using the lolliplot() function to create SNP plots along Zscore values. The problem is I have 16 categories for the SNPs and even if I define my...

Invalid record in bam.unproper.uniq.interval.bed

3 comment

Hi, I get this error when running "TEMP_Absence.sh": ``` bedtools intersect -a /cluster/project/gdc/people/crimjhim/TEPID_final.bed.sort -b merged.Ma99.bam.unproper.uniq.interval.bed -f 1.0 -wo Error: Invalid record in file merged.Ma99.bam.unproper.uniq.interval.bed. Record is chr1 2287009 2287008 HWI-700523F:21:C6KJ9ANXX:4:2301:14610:90784/2...