User: harithaa.anand.125

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Posts by harithaa.anand.125

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Comment: C: Issues with Rhesus Monkey RNASeq Analysis -- featureCounts has very low assignme
... Yes, my reference was also from rheMac10 and the annotation (derived from rheMac10.refGene.txt) is also from the same. -- The reference genome (.fa) is only 2.9G and the GTF file 17M. This is also a part that confuses me. Is something wrong with this? This is the reference file I used > rheMac ...
written 5 weeks ago by harithaa.anand.1250
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Comment: C: Issues with Rhesus Monkey RNASeq Analysis -- featureCounts has very low assignme
... for sortedbam in $(ls *.bam) do name=${sortedbam##*/} #removes the filepath name up until the / of the file name base=${name%.bam} echo $base && featureCounts -T 12 -a /ref/rheMac10refGene.gtf.sorted \ -o /counts/"${base}".txt $sortedbam done ...
written 5 weeks ago by harithaa.anand.1250 • updated 5 weeks ago by genomax80k
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Issues with Rhesus Monkey RNASeq Analysis -- featureCounts has very low assignment rates
... Hello, I am working with non-human RNA-seq for the first time and this is with the Rhesus Monkey. I am having very low alignment rates after featureCounts. The out put is like so: > Load annotation file rheMac10refGene.gtf.sorted ... Features : 47357 ...
rna-seq written 5 weeks ago by harithaa.anand.1250

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