Showing : rsubread • reset
7
votes
28
replies
6.2k
views
Rsubread::featureCounts extremely slow on some annotations
rsubread featurecounts
updated 3 months ago by 50k • written 9.2 years ago by ★ 7.9k
1
vote
21
replies
3.5k
views
Rsubread stopping half-way through align
rsubread
7.9 years ago • updated 7.7 years ago Campbell.1933 • 0
13
votes
20
replies
3.6k
views
cellCounts() function floating point error
Rsubread
2.0 years ago • updated 22 months ago J-E • 0
3
votes
16
replies
18k
views
featureCounts - paired-end data
featurecounts rsubread
updated 11 months ago by • 0 • written 9.0 years ago by ▴ 140
9
votes
16
replies
2.9k
views
Rsubread install fails, "unable to load shared object Rsubread.so"
rsubread
6.0 years ago jet456 ▴ 10
0
votes
16
replies
2.5k
views
Variance between runs of Rsubread
rsubread alignment reproducibility
7.6 years ago Isaac Virshup • 0
0
votes
16
replies
4.4k
views
Error while using buildindex for human genome
rsubread buildindex fasta alignment
5.6 years ago writetoroopali • 0
0
votes
15
replies
2.9k
views
Rsubread crashes in 32bit linux
Yeast Rsubread Yeast Rsubread
updated 12.0 years ago by ★ 3.6k • written 12.0 years ago by ★ 3.3k
3
votes
13
replies
3.0k
views
Rsubread- feature counts
annotation Rsubread featureCounts
updated 5.3 years ago by 50k • written 5.3 years ago by • 0
1
vote
12
replies
1.4k
views
negative one "-1" values in index files using Rsubread
software error rsubread
updated 4.2 years ago by ▴ 380 • written 4.2 years ago by • 0
5
votes
11
replies
3.9k
views
FeatureCounts counts wrongly when quantifying mixed paired and unpaired reads
rsubread featureCounts
updated 2.1 years ago by ▴ 10 • written 5.1 years ago by ▴ 120
3
votes
11
replies
3.6k
views
The low successful assignment ratio of FeatureCounts
FeatureCounts Rsubread Subread
2.1 years ago • updated 2.0 years ago Sarah_piggy ▴ 10
5
votes
11
replies
1.6k
views
Rsubread: change in behavior when accepting mixed paired end and single end files
software error Rsubread
updated 3.9 years ago by 50k • written 3.9 years ago by • 0
1
vote
11
replies
2.6k
views
rsubread versus BWA ( Burrows-Wheeler Alignmener) for whole genome alignment
rsubread BWA NGS
updated 7.7 years ago by ★ 3.6k • written 7.7 years ago by ▴ 10
0
votes
11
replies
2.2k
views
Rsubread/Rsamtools mappings outside of chromosome ranges
PROcess Rsamtools Rsubread TCC PROcess Rsamtools Rsubread TCC
12.3 years ago Thomas Girke ★ 1.7k
0
votes
10
replies
2.5k
views
Rsubread on Cygwin - error due to gcc ... -D MACOS - why?
Rsubread
updated 7.7 years ago by ★ 3.6k • written 7.9 years ago by • 0
4
votes
10
replies
5.3k
views
Finding gene lengths of mm10 to calculate rpkm from count matrix of rna-seq dataset
rpkm gene length count matrix edgeR rsubread
8.6 years ago AB ▴ 110
0
votes
10
replies
1.6k
views
Rsubread ComplexIndels
complexindelsindels Rsubread
3.3 years ago • updated 3.2 years ago Hilary ▴ 30
1
vote
10
replies
5.1k
views
Rsubread package not available? Warning resolved
affxparser Rsubread BiocInstaller affxparser Rsubread BiocInstaller
updated 12.5 years ago by ★ 3.6k • written 12.5 years ago by ▴ 20
2
votes
9
replies
1.7k
views
featureCounts with NCBI T2T not capturing all genes
CHM13v2.0 featureCounts T2T Rsubread
14 months ago Hilary ▴ 30
0
votes
9
replies
2.6k
views
mapping FASTQ files to single gene (fluorescent reporter)
rsubread alignment align
5.5 years ago A ▴ 40
0
votes
9
replies
2.9k
views
Featurecounts issue for counting exons: Not matching total counts mapped for specific gene
featurecounts Rsubread ggbio
updated 5.5 years ago by ★ 3.6k • written 5.5 years ago by ▴ 40
2
votes
9
replies
1.7k
views
countPrimaryAlignmentsOnly=TRUE produced more counts
rsubread
updated 8.3 years ago by ★ 3.6k • written 8.3 years ago by ▴ 40
3
votes
8
replies
4.3k
views
Fraction arguments for multi mapping reads in featureCounts in Rsubread
rsubread
8.4 years ago tg369 ▴ 10
1
vote
8
replies
3.2k
views
Help with this in Rstudio - ERROR: the BAM input file, 'sample.bam', doesn't have a valid EOF block.
Rsubread
2.6 years ago • updated 2.5 years ago v.merino.nicolas ▴ 10
0
votes
8
replies
3.4k
views
featureCounts Returns 0.0% successfully assigned fragments
rsubread featurecounts
6.0 years ago connor.geraghty • 0
2
votes
8
replies
2.9k
views
Unassigned reads in Rsubread FeatureCounts
Rsubread
updated 2.1 years ago by ★ 3.3k • written 4.0 years ago by • 0
3
votes
8
replies
7.2k
views
Reads in Unassigned_NoFeatures category produced by featureCounts
rsubread
updated 8.2 years ago by ★ 3.6k • written 8.2 years ago by ▴ 40
0
votes
8
replies
2.0k
views
Rsubread alingner
Alignment Yeast Rsubread Alignment Yeast Rsubread
13.1 years ago Wei Shi ★ 3.6k
2
votes
7
replies
2.2k
views
Rsubread requests longread mode for shotgun RNAseq data
Rsubread counting RNA-seq
updated 2.9 years ago by ▴ 380 • written 4.6 years ago by • 0
3
votes
7
replies
1.9k
views
Rsubread inbuilt annotation
rsubread featureCounts
updated 5.1 years ago by 50k • written 5.1 years ago by • 0
4
votes
7
replies
6.0k
views
convert featureCounts's gene ID to entrez gene id
biomart rsubread gencode
updated 5.6 years ago by 65k • written 5.6 years ago by ▴ 20
12
votes
7
replies
2.0k
views
No method for coercing this S4 class to a vector, as trying to import my own data rather than using SRA in the workflow RnaSeqGeneEdgeRQL
rnaseqgeneedgerql shortread Rsubread
updated 5.1 years ago by ▴ 60 • written 5.1 years ago by ▴ 60
0
votes
7
replies
2.5k
views
caught segfault when using featureCounts
rsubread featurecounts
6.4 years ago Ge Tan ▴ 20
3
votes
6
replies
5.4k
views
How featureCounts define the gene length
featurecounts rnaseq rsubread
updated 2.4 years ago by 50k • written 7.6 years ago by ▴ 20
4
votes
6
replies
782
views
[BUG] Rsubread::featureCounts quirk in CORE files: different target list ordering for same target lists
featurecounts Rsubread
3 months ago isaac.vock • 0
5
votes
6
replies
1.7k
views
Rsubread malloc(): memory corruption
Rsubread malloc align
updated 4.6 years ago by 50k • written 4.7 years ago by ▴ 80
2
votes
6
replies
2.6k
views
featureCount error - cannot identify gene_id
dexseq rsubread featureCount software error
updated 4.5 years ago by ▴ 380 • written 4.5 years ago by • 0
0
votes
6
replies
1.8k
views
ERROR: cannot finish the BAM file. Please check the disk space in the output directory.
Rsubread
updated 3.1 years ago by ★ 3.6k • written 3.2 years ago by • 0
2
votes
6
replies
2.5k
views
Install Rsubread in win10, failed, how to proceed?
rsubread windows10 rtools
updated 4.7 years ago by ▴ 380 • written 6.9 years ago by ▴ 200
5
votes
6
replies
4.4k
views
Create count matrix with featureCounts for stranded as well as reversely stranded, singles as well as paired-end libraries
rsubread
updated 3.5 years ago by • 0 • written 6.1 years ago by • 0
7
votes
6
replies
16k
views
featureCount - very less Successfully assigned reads
featurecounts rsubread
updated 9.4 years ago by 65k • written 9.4 years ago by ▴ 10
2
votes
6
replies
1.9k
views
featurecounts Rsubread ERROR on exon_id
R error software error Rsubread featurecounts
updated 5.1 years ago by ★ 3.6k • written 5.1 years ago by • 0
5
votes
6
replies
1.4k
views
Improving the performance of the align function from Rsubread for old Roche454 reads
align rsubread roche454 rnaseq
updated 5.1 years ago by ★ 3.6k • written 5.1 years ago by ▴ 60
0
votes
6
replies
1.9k
views
Rsubread featureCounts with byReadGroup
rsubread featurecounts
updated 6.6 years ago by ▴ 380 • written 6.6 years ago by ▴ 20
1
vote
6
replies
1.9k
views
Rsubread Installation error
rsubread compilation error
updated 6.1 years ago by 50k • written 6.1 years ago by ▴ 10
1
vote
6
replies
1.9k
views
Rsubread - Error on buildindex - big ref sequence
Rsubread
updated 9 months ago by ▴ 380 • written 4.2 years ago by • 0
5
votes
6
replies
3.2k
views
Error in Rsubread featureCounts
Rsubread
2.3 years ago Zhaoxu • 0
0
votes
5
replies
2.5k
views
Rsubread : featureCounts PEReadsReordering=TRUE deletes unpaired reads?
Rsubread Rsubread
updated 10.5 years ago by ★ 3.6k • written 10.5 years ago by ★ 7.9k
1
vote
5
replies
3.1k
views
using paired end and single end data in featurecounts
featurecounts rsubread
updated 6.8 years ago by 65k • written 6.8 years ago by • 0
50 results • Page 1 of 1
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Comment: all variables in design formula must be columns in colData (Deseq2) error by Galina • 0
thank you!
Comment: all variables in design formula must be columns in colData (Deseq2) error by ATpoint ★ 4.1k
coldata_rat <- data.frame(conditions=..., batch=...)
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it by robersy • 0
Thank you all for your comments. I will follow your suggestions.
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by Ken C • 0
Hi Michael, thanks a lot for your prompt reply! Not sure if this is appropriate or if you are the right person to ask -- is there anything…
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by Ken C • 0
Well, if I look at genes with baseMean>50, then the relative absolute difference in log2FoldChange (say over the absolute log2FoldChange of…
Votes
biomaRt not working - lazy table error
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
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Popular Question to shepherl 3.9k
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