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Clone wikiseqTools / htseq-count
Running htseq-count
samtools view -h PALFYN_Tumor.rna.bam | htseq-count -m intersection-nonempty -s no - ../Homo_sapiens.GRCh37.67.fixed.gtf > test.counts
Updated
samtools view -h PALFYN_Tumor.rna.bam | htseq-count -m intersection-nonempty -s no - ../Homo_sapiens.GRCh37.67.fixed.gtf > test.counts
Updated