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<prev • 132 results • page 1 of 5 • next >
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Has anyone tried "star --readFilesManifest manifest.tsv" and then "featureCounts --byReadGroup" to quickly get gene quantification for multiple samples?
featurecounts star rna-seq written 16 days ago by Xianjun • 280
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84
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lncRNA quantification using featureCounts
featurecounts lncrna written 17 days ago by kuntalasb • 10
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featureCounts paired end mode
paired featurecounts subread rna-seq bam written 27 days ago by henry-keen • 20 • updated 27 days ago by Carlo Yague ♦ 5.7k
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122
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Read counts generated from featureCounts
featurecounts written 4 weeks ago by basuanubhav • 10 • updated 4 weeks ago by Carlo Yague ♦ 5.7k
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Outputting Unassigned reads from Rsubread featureCounts
R featurecounts rsubread rna-seq written 5 weeks ago by David M • 10 • updated 5 weeks ago by Carlo Yague ♦ 5.7k
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119
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Feature Counts how to identify each sample
featurecounts rna rna-seq genomereference written 6 weeks ago by luzglongoria • 40
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Question about featureCounts strand options
featurecounts rna-seq written 7 weeks ago by lorenzo • 20
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223
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How to remove X & Y chromosome genes from RNAseq data
deseq2 featurecounts star rna-seq written 8 weeks ago by archit22684 • 0
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Formatting BAM file and GTF file for feature counts
alignment featurecounts rna-seq bam written 9 weeks ago by abhilashtripathi10 • 0
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220
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Problem when running FeatureCounts
featurecounts rna bamfile error rna-seq written 11 weeks ago by luzglongoria • 40
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Why counts to tpm gives different values compared to tpm from kallisto?
featurecounts tpm kallisto rna-seq rawcounts written 4 months ago by newbie • 90
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Why there are low assigned reads in featureCounts output and different outputs for quality checks?
reads alignment featurecounts qualimap rna-seq written 5 months ago by newbie • 90 • updated 5 months ago by rpolicastro ♦ 4.0k
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How does featurecounts deal with the output from Bowtie?
featurecounts rna-seq bowtie written 5 months ago by wangdp123 • 250 • updated 5 months ago by swbarnes2 ♦ 9.6k
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ERROR: failed to find the gene identifier attribute in the 9th column of the provided GTF file.
featurecounts written 10 months ago by chatterjee.arumoy • 20 • updated 5 months ago by GenoMax ♦ 96k
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FeatureCounts (Ensembl based GTF v.s In-built Entrez GTF) variances in count data
bioinformatics featurecounts rna-seq sequencing written 6 months ago by harrydolan.dc • 0
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Best normalization method to use with ChIP-seq counts
normalization featurecounts chip-seq counts edger written 6 months ago by science_lizard • 0 • updated 6 months ago by ATpoint ♦ 46k
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349
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Low Counts with featureCounts
featurecounts rna-seq written 6 months ago by Neat • 0
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270
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Full GTF file vs Subset GTF file
ensembl featurecounts mirna-seq rna-seq written 7 months ago by Arindam Ghosh • 350 • updated 7 months ago by Shalu Jhanwar • 490
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540
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Correlate ChIP-seq to gene expression
chip-seq featurecounts correlation counts rna-seq written 7 months ago by science_lizard • 0 • updated 7 months ago by rohitsatyam102 • 270
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FeatureCounts output does not contain all the genes in the annotation file
rnaseq rice featurecounts bash written 9 months ago by devbt15 • 10
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featureCounts: extremely low rate of 'Successfully assigned alignments'
featurecounts rna-seq written 8 months ago by Yi Chu • 0
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6 follow
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Fixing BAM file errors reported by Picard ValidateSamFile, and in featureCounts' outfile
picard featurecounts validatesamfile bam written 8 months ago by Anand Rao • 350
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featureCounts on antisense genes
featurecounts rna-seq written 8 months ago by till.schwaemmle • 0
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featureCounts strand specify parameter
featurecounts count matrix strand-specify rna-seq written 10 months ago by ek699 • 0 • updated 8 months ago by Biostar ♦♦ 20
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Is Stringtie a suitable tool for both gene and transcript quantification?
gene stringtie featurecounts rna-seq sequencing written 9 months ago by tianshenbio • 80 • updated 9 months ago by i.sudbery ♦ 11k
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Read counts at gene and transcript level - hisat2+Featurecounts or Stringtie?+deseq2
stringtie featurecounts deseq2 rna-seq hisat2 written 9 months ago by tianshenbio • 80
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325
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After read mapping, count exons or genes?
genome featurecounts rna-seq written 9 months ago by tianshenbio • 80 • updated 9 months ago by ATpoint ♦ 46k
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281
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Genome with many duplicated genes: allow multimapping in featurecounts?
next-gen featurecounts written 10 months ago by Tatiana • 10 • updated 10 months ago by swbarnes2 ♦ 9.6k
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FeatureCounts results: does it look correct? Why so many unassigned unmapped reads?
featurecounts rna star rna-seq written 10 months ago by tanya_fiskur • 40 • updated 10 months ago by Chyguc • 0
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[Title Edited] How to update the GFF3 wrong file? [was:] featureCounts may be ignore chloroplast sequences in a plant genome when use -t exon and -g ID in a GFF file?
forum featurecounts subread rna-seq written 10 months ago by marcelolaia • 10
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