User: chatterjee.arumoy
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Posts by chatterjee.arumoy
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... Thanks, Chris S.
It seemed to work for me.
Since I am not well versed with grep, please kindly tell me (us) how did you fix the GTF file? And where from could we learn more about handling this type of issues.
Thanks a lot. ...
written 25 days ago by
chatterjee.arumoy • 0
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Comment:
C: GTF/GFF file for feature count
... Hi, I have a similar problem with my GTF file. Feature count is giving the error "failed to find the gene identifier attribute in the 9th column of the provided GTF file." Please kindly if you tell me how to remove the " and wide space.
Arumoy. ...
written 26 days ago by
chatterjee.arumoy • 0
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... I see the "gene_id" is present. I also converted the .gtf file into an excel table also and the 9th column is indeed "gene_id". Each column of the .gtf file has 335791 entries.
#gtf-version 2.2
#!genome-build Amel_HAv3.1
#!genome-build-accession NCBI_Assembly:GCF_003254395.2
#!annot ...
written 6 months ago by
chatterjee.arumoy • 0
• updated
4 weeks ago by
genomax ♦ 91k
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... Hi,
I am trying to use featureCounts to analyse my RNA-seq data with Apis mellifera.
My Code and error are as follows. r
/softwares/subread-2.0.0-source/bin/featureCounts
-T 16
-p
-s 1
-a /home/axel/arumoyc/alignment/GCF_003254395.2_Amel_HAv3.1_genomic.gtf
-t exon
...
written 6 months ago by
chatterjee.arumoy • 0
• updated
4 weeks ago by
genomax ♦ 91k
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