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User: leo_CD

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leo_CD0
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Posts by leo_CD

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Comment: C: featureCounts error : SAM_pairer_iterate_tags
... I will reach you by email and send you one of the bam that fail. Thank for your help. ...
written 12 days ago by leo_CD0
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Comment: C: featureCounts error : SAM_pairer_iterate_tags
... 1) yes it's about the C version sorry for the confusion. 2)Using subread1.6.3 the command i've use is : `featureCounts -p -a Homo_sapiens.GRCh37.75.gtf -t exon -g gene_id -o /data/tmp/${PBS_JOBNAME}.fc.txt bamfile.bam` 3) I said those bam contain in their header : > @CO This BAM file is proc ...
written 12 days ago by leo_CD0
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featureCounts error : SAM_pairer_iterate_tags
... Hi, I'm using featureCounts to count reads in bam files from RNAseq. Those bam contain the header "@CO This BAM file is processed by rsem-tbam2gam to convert from transcript coordinates into genomic coordinates." for few of those bams I have an error : ========== _____ _ _ _ ...
featurecounts subread written 12 days ago by leo_CD0 • updated 12 days ago by Gordon Smyth36k
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Using TPM of a specific isoform as a phenotype for gene set enrichment analysis
... Dear all, I've a dataset of around 150 RNAseq from different patients and after performing quantification of transcript with Salmon. I'm interested in founding immunologic signature correlate with the expression of a specific gene isoform. So I've retrieve the abundance (TPM) of that isoform among ...
rnaseq deseq2 gsea tpm salmon rna seq written 4 months ago by leo_CD0 • updated 3 months ago by Michael Love21k

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