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<prev • 116 results • page 1 of 4 • next >
2
votes
1
answer
104
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1
answer
Full GTF file vs Subset GTF file
ensembl featurecounts mirna-seq rna-seq written 18 days ago by Arindam Ghosh • 300 • updated 18 days ago by Shalu Jhanwar • 350
2
votes
1
answer
170
views
1
answer
Correlate ChIP-seq to gene expression
chip-seq featurecounts correlation counts rna-seq written 23 days ago by science_lizard • 0 • updated 22 days ago by rohitsatyam102 • 170
1
vote
2
answers
241
views
5 follow
2
answers
FeatureCounts output does not contain all the genes in the annotation file
rnaseq rice featurecounts bash written 9 weeks ago by devbt15 • 10
1
vote
1
answer
104
views
1
answer
featureCounts: extremely low rate of 'Successfully assigned alignments'
featurecounts rna-seq written 29 days ago by Yi Chu • 0
0
votes
3
answers
334
views
5 follow
3
answers
ERROR: failed to find the gene identifier attribute in the 9th column of the provided GTF file.
featurecounts written 3 months ago by chatterjee.arumoy • 0 • updated 5 weeks ago by Juke34 • 4.5k
4
votes
1
answer
177
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6 follow
1
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Fixing BAM file errors reported by Picard ValidateSamFile, and in featureCounts' outfile
picard featurecounts validatesamfile bam written 8 weeks ago by Anand Rao • 310
0
votes
0
answers
93
views
0
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featureCounts on antisense genes
featurecounts rna-seq written 7 weeks ago by till.schwaemmle • 0
0
votes
0
answers
150
views
0
answers
featureCounts strand specify parameter
featurecounts count matrix strand-specify rna-seq written 3 months ago by ek699 • 0 • updated 7 weeks ago by Biostar ♦♦ 20
8
votes
2
answers
149
views
2
answers
Is Stringtie a suitable tool for both gene and transcript quantification?
gene stringtie featurecounts rna-seq sequencing written 9 weeks ago by tianshenbio • 50 • updated 9 weeks ago by i.sudbery ♦ 8.4k
1
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0
answers
163
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0
answers
Read counts at gene and transcript level - hisat2+Featurecounts or Stringtie?+deseq2
stringtie featurecounts deseq2 rna-seq hisat2 written 10 weeks ago by tianshenbio • 50
2
votes
1
answer
149
views
1
answer
After read mapping, count exons or genes?
genome featurecounts rna-seq written 10 weeks ago by tianshenbio • 50 • updated 10 weeks ago by ATpoint ♦ 36k
0
votes
1
answer
129
views
1
answer
Genome with many duplicated genes: allow multimapping in featurecounts?
next-gen featurecounts written 3 months ago by Tatiana • 0 • updated 3 months ago by swbarnes2 ♦ 8.1k
1
vote
1
answer
312
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1
answer
FeatureCounts results: does it look correct? Why so many unassigned unmapped reads?
featurecounts rna star rna-seq written 3 months ago by tanya_fiskur • 30 • updated 3 months ago by Chyguc • 0
6
votes
1
answer
213
views
1
answer
[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 3 months ago by marcelolaia • 10
4
votes
1
answer
142
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1
answer
Different length returned by featureCounts and seqtk comp and AGAT
subread agat featurecounts rsubread seqtk written 3 months ago by marcelolaia • 10 • updated 3 months ago by Juke34 • 4.5k
3
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0
answers
231
views
0
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Reads shown in IGV not quantified by featureCounts
featurecounts rna-seq igv written 3 months ago by a.palmer • 20
0
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0
answers
116
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0
answers
Receiving more reads from exons than whole genes using featurecounts
featurecounts rsubread rna-seq written 3 months ago by till.schwaemmle • 0
1
vote
0
answers
372
views
0
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featureCounts: Low % assigned fragments and discrepancy between STAR alignment multi mapped reads
subread next-gen featurecounts star rna-seq written 3 months ago by david.gonzalez • 10
2
votes
2
answers
1.3k
views
2
answers
featureCounts with pseudobam
featurecounts salmon rna-seq pseudobam kallisto written 3.6 years ago by mccormack • 40 • updated 4 months ago by ATpoint ♦ 36k
1
vote
0
answers
176
views
0
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How do I decide the mapping quality score in featureCounts?
featurecounts rna-seq quality score written 4 months ago by dark.lord • 30
3
votes
1
answer
444
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1
answer
featureCounts does not summarise counts from added/reporter genes
subread featurecounts rsubread star rna-seq written 4 months ago by eduardogccm • 10
2
votes
2
answers
193
views
2
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Non-overlapping exon set for exon counting (Illumina RNA-seq)
gtf exon subread featurecounts rna-seq written 5 months ago by andreismolnikov00 • 0 • updated 5 months ago by i.sudbery ♦ 8.4k
0
votes
2
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1.7k
views
2
answers
featureCount not processing reads
featurecounts rsubread rna-seq written 5.7 years ago by amoltej • 90 • updated 5 months ago by Tom • 530
17
votes
3
answers
834
views
9 follow
3
answers
How to get read counts on transcript level using featurecounts?
featurecounts geneexpression rna-seq written 5 months ago by newbie • 70 • updated 5 months ago by Gordon Smyth • 1.8k
2
votes
2
answers
263
views
2
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featureCounts log: "WARNING contig is not found in the provided genome file!"
featurecounts subread rna-seq written 6 months ago by Andrés Ribone • 0 • updated 5 months ago by dbpzdbpz • 140
1
vote
1
answer
409
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1
answer
featureCounts --primary tag counting uniquely mapped reads and excludes multi-mapped reads?
featurecounts star written 6 months ago by solyris83 • 10 • updated 6 months ago by Tomás Di Domenico • 30
3
votes
2
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216
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2
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featurecounts output changes the underscores in the sample name into dots
featurecounts written 6 months ago by wangdp123 • 240 • updated 6 months ago by Gordon Smyth • 1.8k
3
votes
1
answer
260
views
1
answer
getting 0 counts using hisat2 and feature_count pipeline
count featurecounts rna-seq hisat2 written 6 months ago by bioyas • 0 • updated 6 months ago by swbarnes2 ♦ 8.1k
2
votes
1
answer
412
views
7 follow
1
answer
How to interpret the differences of read counts using htseq and feature counts?
htseq next-gen featurecounts rna-seq written 6 months ago by 2822462298 • 50 • updated 6 months ago by michael.ante • 3.6k
1
vote
1
answer
412
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1
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RNAseq read counts generated by FeatureCounts
featurecounts rna-seq written 8 months ago by Adeler001 • 0
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