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How do I decide the mapping quality score in featureCounts?
featurecounts rna-seq quality score written 16 days ago by dark.lord • 20
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1
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241
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1
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featureCounts does not summarise counts from added/reporter genes
subread featurecounts rsubread star rna-seq written 25 days ago by eduardogccm • 10
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2
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101
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2
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Non-overlapping exon set for exon counting (Illumina RNA-seq)
gtf exon subread featurecounts rna-seq written 26 days ago by andreismolnikov00 • 0 • updated 26 days ago by i.sudbery ♦ 7.3k
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1.6k
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featureCount not processing reads
featurecounts rsubread rna-seq written 5.3 years ago by amoltej • 90 • updated 5 weeks ago by Tom • 520
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3
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264
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9 follow
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How to get read counts on transcript level using featurecounts?
featurecounts geneexpression rna-seq written 5 weeks ago by newbie • 70 • updated 5 weeks ago by Gordon Smyth • 1.5k
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164
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featureCounts log: "WARNING contig is not found in the provided genome file!"
featurecounts subread rna-seq written 9 weeks ago by Andrés Ribone • 0 • updated 7 weeks ago by dbpzdbpz • 130
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124
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featureCounts --primary tag counting uniquely mapped reads and excludes multi-mapped reads?
featurecounts star written 8 weeks ago by solyris83 • 10 • updated 8 weeks ago by Tomás Di Domenico • 30
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2
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132
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featurecounts output changes the underscores in the sample name into dots
featurecounts written 10 weeks ago by wangdp123 • 230 • updated 10 weeks ago by Gordon Smyth • 1.5k
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1
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141
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1
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getting 0 counts using hisat2 and feature_count pipeline
count featurecounts rna-seq hisat2 written 10 weeks ago by bioyas • 0 • updated 10 weeks ago by swbarnes2 ♦ 7.5k
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1
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259
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7 follow
1
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How to interpret the differences of read counts using htseq and feature counts?
htseq next-gen featurecounts rna-seq written 11 weeks ago by 2822462298 • 50 • updated 11 weeks ago by michael.ante • 3.6k
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1
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295
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1
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RNAseq read counts generated by FeatureCounts
featurecounts rna-seq written 4 months ago by Adeler001 • 0
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164
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1
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Different results from featureCounts using gene_id and gene_biotype
biotype featurecounts subread rna-seq readcounts written 3 months ago by CuriusScientist • 40 • updated 3 months ago by i.sudbery ♦ 7.3k
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148
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featureCounts parameters for RNA-Seq
featurecounts subread rna-seq readcounts written 3 months ago by CuriusScientist • 40 • updated 3 months ago by h.mon ♦ 29k
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2
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318
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RNA-Seq Read Counting using featureCounts
featurecounts subread rna-seq written 5 months ago by deepak18 • 10
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1
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185
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1
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Using StringTie output GTF with featureCounts to assign reads- low assigned percentage
stringtie featurecounts rna-seq written 5 months ago by sg197 • 10 • updated 5 months ago by Amar • 640
3
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264
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Question about featureCounts
featurecounts rna-seq written 5 months ago by chichaochen • 10
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1
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571
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1
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Difference between read counts STAR vs featureCounts
featurecounts star rna-seq multimapped written 6 months ago by sg197 • 10 • updated 6 months ago by h.mon ♦ 29k
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254
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featureCounts() in Rsubread freezes on gene_biotype as the meta-feature, command-line version doesn't
subread featurecounts rsubread rna-seq written 6 months ago by jirkanov • 0
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1
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Are single-end reads processed the same as paired-end reads regarding strandedness?
featurecounts strandedness single-end rna-seq written 6 months ago by sg197 • 10 • updated 6 months ago by ATpoint ♦ 32k
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243
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1
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No reads assigned to bacterial genome with featureCounts (Rsubread)
R featurecounts rna-seq written 6 months ago by Mathias_H • 20
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2
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427
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featureCounts error with 150bp Paired end RNA seq data
ngs featurecounts paired-end rna-seq star written 8 months ago by Ankur B. Sharma • 10 • updated 7 months ago by swbarnes2 ♦ 7.5k
2
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0
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215
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Can we make a counting program using GFF3 reference files?
rnaseq htseq-count featurecounts written 7 months ago by ino • 0
1
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182
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Problem in featureCounts file.
featurecounts rna-seq written 8 months ago by hafiz.talhamalik • 230 • updated 8 months ago by genomax ♦ 80k
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244
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Counting Ribo-seq data on gene and transcript level?
riboseq salmon featurecounts rna-seq written 9 months ago by BPors • 40
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FeatureCounts count reads per gene (Including Introns)
featurecounts rna-seq written 9 months ago by paulranum11 • 60
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2
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597
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2
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miRna-Seq, featureCounts problem
mirbase featurecounts mirna written 10 months ago by AngAdd • 0 • updated 10 months ago by Buffo • 1.8k
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2
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539
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2
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44% Successfully Assigned Fragments with featureCounts after 85% uniquely mapped reads with STAR
alignment featurecounts star rna-seq written 10 months ago by garbuzov • 20
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597
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1
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Transform BED file to SAF for featureCounts
featurecounts written 10 months ago by Chironex • 20 • updated 10 months ago by ATpoint ♦ 32k
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1
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1
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How can I export featureCounts (Rsubread) results?
R featurecounts rsubread written 5.5 years ago by gustavoborin01 • 40 • updated 10 months ago by sivaranjanisk • 0
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Error using feature counts with DESeq2 : Cannot create DESeqData object
deseq2 featurecounts rna-seq written 11 months ago by Cookie-san • 80 • updated 10 months ago by Biostar ♦♦ 20
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