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featurecounts flags for lncRNA and mRNA co-expression
co-expression featurecounts written 1 day ago by Sam • 100
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100
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2
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The optimal minMQS parameter in featureCounts for RNA-Seq quantification
minmqs quantification featurecounts rna-seq written 13 days ago by Gary • 450 • updated 11 days ago by Gordon Smyth • 440
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137
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Subread and featurecounts read index and annotation once for all
alignment featurecounts rna-seq written 9 weeks ago by bharata1803 • 400
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308
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strandness of paired-end data
featurecounts rna-seq written 4 months ago by waqaskhokhar999 • 10 • updated 10 weeks ago by Biostar ♦♦ 20
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219
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How to identify RNA-seq mapped reads to reference genome but not identified by featurecounts of Subread package?
featurecounts rna-seq hisat2 written 10 weeks ago by bk11 • 30 • updated 10 weeks ago by kristoffer.vittingseerup • 1.4k
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143
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Strand specific in RNA-seq
featurecounts subread rna-seq written 11 weeks ago by swarajgaikwad15 • 0 • updated 11 weeks ago by caggtaagtat • 400
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301
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5 follow
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How to open a .tabular file in R or excel?
tabular featurecounts rna-seq written 3 months ago by writetoroopali • 0
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329
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1
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Problem with extracting read counts from RNA seq file
software error featurecounts rna-seq rseqc written 4 months ago by popescuiofelia • 10 • updated 4 months ago by h.mon ♦ 23k
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featureCounts - how to make ATAC-seq cut-sites BAM
featurecounts bed files written 4 months ago by Lucy • 0 • updated 4 months ago by genomax ♦ 62k
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how specify feature type in featureCounts
featurecounts written 4 months ago by lkianmehr • 30 • updated 4 months ago by Macspider • 2.7k
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510
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How to convert featureCounts to FPKM?
R fpkm featurecounts rna-seq written 4 months ago by Biologist • 130 • updated 4 months ago by h.mon ♦ 23k
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featureCounts allowMultiOverlap - fractional or not?
featurecounts atac-seq written 4 months ago by Lucy • 0
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Annotating RNA-seq alignments to Unigene annotations- is it possible?
R alignment unigene featurecounts rna-seq written 2.9 years ago by legro.melanie • 0 • updated 4 months ago by RamRS ♦ 20k
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featurecounts more fragments than input read pairs
htseq-count featurecounts pair-end rna-seq written 6 months ago by ewre • 210 • updated 5 months ago by Biostar ♦♦ 20
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Difference between two count table that created from same fastq files?
gtf tophat featurecounts rna-seq counttable written 5 months ago by cilgaiscan • 40 • updated 5 months ago by h.mon ♦ 23k
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featureCounts: 0% successfully assigned fragments on multiple PE .BAM files
featurecounts rsubread written 5 months ago by imesi • 20 • updated 5 months ago by genomax ♦ 62k
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Error during running umi_tools
featurecounts umi_tools csamtools reference_name written 13 months ago by baffiak1902 • 10 • updated 6 months ago by smithtomsean • 140
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6 follow
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featureCounts and bash
featurecounts rna-seq bash written 6 months ago by cilgaiscan • 40 • updated 6 months ago by jkkim • 20
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5 follow
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How do you convert featureCounts output into composition of mapped reads by RNA class?
featurecounts deseq2 rna-seq written 6 months ago by 2405592M • 20
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featureCounts output processing (command line)
command line featurecounts rna-seq written 6 months ago by 2405592M • 20 • updated 6 months ago by h.mon ♦ 23k
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featureCounts fails to reorder BAM and duplicates read counts
featurecounts subread rna-seq written 7 months ago by samuel.marsh • 0 • updated 7 months ago by Devon Ryan ♦ 88k
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1
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609
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featureCounts for aligned reads
rnaseq differential featurecounts de expression written 7 months ago by rsafavi • 40 • updated 7 months ago by genomax ♦ 62k
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855
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FeatureCounts summarizing at exon level
featurecounts rna-seq exon written 8 months ago by yamar • 0 • updated 8 months ago by dbpzdbpz • 90
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3
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511
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Genes with promoter and enhancer regions as GTF
gtf chip-seq genes featurecounts promoter written 8 months ago by hkarakurt • 30
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1
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Differential gene expression results are different while using hg19 and hg38 genomic assembly
stringtie galaxy featurecounts cufflink rna-seq written 8 months ago by akilabioinfo • 0 • updated 8 months ago by Devon Ryan ♦ 88k
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510
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FeatureCounts fails to count fragments instead of reads
featurecounts fragment counting reads rna-seq written 10 months ago by Wietje • 180 • updated 10 months ago by JJ • 430
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Alignment and Counting strandedness redundancy?
alignment featurecounts rna-seq strand hisat2 written 10 months ago by brismiller • 10 • updated 10 months ago by h.mon ♦ 23k
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Is it possible to import a count table into MEGAN?
featurecounts rna-seq bwa megan written 17 months ago by victor.gambarini • 30 • updated 10 months ago by katerinapargana • 0
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Predicted gene differentially expressed in Kallisto, not in FeatureCounts
featurecounts kallisto written 11 months ago by Bastien Hervé ♦ 3.3k • updated 11 months ago by h.mon ♦ 23k
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featureCounts/HTSeq-count problem with different annotation files
htseq-count featurecounts rna-seq written 3.3 years ago by monteiro.s.rita • 0 • updated 11 months ago by Biostar ♦♦ 20
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