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0
votes
0
replies
166
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rMATS reports zero evenets?
splicing RNA-Seq rmats
7 weeks ago by PK ▴ 130
0
votes
0
replies
150
views
How to calculate weighted transcript length for each gene?
salmon tximport rna-seq
updated 7 weeks ago by 43k • written 7 weeks ago by ▴ 130
2
votes
2
replies
288
views
Error from cgat gtf2gtf --method=genes-to-unique-chunks
RNA-Seq GTF cgat
11 weeks ago by PK ▴ 130
4
votes
5
replies
617
views
Featurecounts has more reads than star assigned reads ?
featurecounts STAR RNA-seq
4 months ago by PK ▴ 130
2
votes
1
reply
398
views
How to normalize intron counts?
DESeq limma RNA-SEQ
updated 10 months ago by 10k • written 10 months ago by ▴ 130
1
vote
8
replies
1.2k
views
Is it possible to use salmon alevin tool for total rna seq samples?
salmon alignment
11 months ago by PK ▴ 130
1
vote
1
reply
428
views
weird behaviour on bedtools
bedtools RNA-Seq
updated 11 months ago by 43k • written 11 months ago by ▴ 130
1
vote
0
replies
491
views
How to calculate Exon-Intron junction perbase coverage?
RNA-Seq bedtools
14 months ago by PK ▴ 130
0
votes
0
replies
360
views
Reference book for clip seq analysis?
RNASEQ clipseq R
14 months ago by PK ▴ 130
0
votes
0
replies
356
views
How to normalize the counts when you are looking at 3'UTR?
bedtools RNA-Seq
updated 11 months ago by 43k • written 15 months ago by ▴ 130
0
votes
2
replies
726
views
Metagene for first last and intermediate exons?
ggplot Rna-seq deeptools r
updated 11 months ago by 43k • written 16 months ago by ▴ 130
0
votes
1
reply
983
views
how to create a metagene plot for different features of genes?
metagene RNA-Seq deeptools R
updated 17 months ago by 11k • written 17 months ago by ▴ 130
3
votes
3
replies
637
views
How to plot that the certain exons are affected in the genebody?
RNA-seq
updated 17 months ago by 43k • written 17 months ago by ▴ 130
1
vote
1
reply
477
views
How to handle multiple overlap and choose closest one?
RNA-Seq bedtools
updated 17 months ago by 161k • written 17 months ago by ▴ 130
5
votes
16
replies
2.8k
views
How to extract intron counts from total RNA Sequencing?
featurecounts RNAseq htseq STAR
18 months ago by PK ▴ 130
4
votes
7
replies
1.6k
views
What is the advantage of mapping RNA-Seq against genome?
RNA-SEQ mapping
18 months ago by PK ▴ 130
0
votes
0
replies
376
views
can i use repeat masker gff file to directly extract the counts from fastq files?
repeat base masker rep
19 months ago by PK ▴ 130
0
votes
0
replies
329
views
How to generate gene body coverage plot for tRNA?
clipseq peak-calling RNA-seq samtools
updated 11 months ago by 43k • written 21 months ago by ▴ 130
0
votes
4
replies
796
views
What is the maximum size of fasta file i can use for repeatmasker?
RNAseq Repeatmasker repititive elements
22 months ago by PK ▴ 130
3
votes
11
replies
1.5k
views
RepeatMasker error
repeatmasking transciptome RNA-seq
updated 22 months ago by ★ 1.9k • written 22 months ago by ▴ 130
1
vote
1
reply
494
views
Where to find terra (telomeric RNA) coordinates?
rnaseq Alignment mapping
updated 23 months ago by 28k • written 23 months ago by ▴ 130
1
vote
2
replies
754
views
How to integrate multi omics data in cytoscape
cytoscape protein-protein interaction network
23 months ago by PK ▴ 130
2
votes
1
reply
515
views
Is it possible to find the mutation in RNA-seq reads?
RNA-seq mapping clip-seq
updated 2.0 years ago by 8.7k • written 2.0 years ago by ▴ 130
1
vote
1
reply
485
views
where can i find all TE elements GTF?
peakcalling RNAseq clipseq
updated 2.2 years ago by 54k • written 2.2 years ago by ▴ 130
0
votes
2
replies
563
views
Piranha peak calling waring message?
RNA-seq peak-calling piranha
updated 23 months ago by 43k • written 2.3 years ago by ▴ 130
0
votes
2
replies
580
views
How to subset peaks based on RNA sub class?
peakcalling RNAseq clipseq
2.3 years ago by PK ▴ 130
0
votes
2
replies
647
views
How to do the peak calling for introns?
RNAseq clipseq peakcalling
2.3 years ago by PK ▴ 130
0
votes
0
replies
432
views
How to analyse RNA-based protein pulldown mass spectrometry data
proteomics R maxquant limma
2.9 years ago by PK ▴ 130
0
votes
1
reply
815
views
How can i handle the multimapped reads?
assembly sequencing alignment
updated 3.0 years ago by • 0 • written 3.2 years ago by ▴ 130
1
vote
1
reply
480
views
Extract co-ordinate for iCLIP data?
sequencing linux RNA
updated 3.0 years ago by 100k • written 3.0 years ago by ▴ 130
5
votes
6
replies
3.5k
views
How to calculate per base coverage from the .bam file?
RNA-Seq next-gen R
updated 4.6 years ago by 82k • written 4.6 years ago by ▴ 130
0
votes
3
replies
1.4k
views
Export error WITH AGP?
software error genome next-gen alignment
updated 4.6 years ago by ▴ 280 • written 6.9 years ago by ▴ 130
0
votes
0
replies
671
views
how to define more stringent parameters for the snoscan to indentify snoRNA target on rRNA?
sequence rna-seq genome
4.8 years ago by PK ▴ 130
1
vote
3
replies
1.0k
views
How to extract un annotated (With abundant) small RNA transcript?
RNA-Seq sequencing Assembly
updated 5.4 years ago by 12k • written 5.4 years ago by ▴ 130
17
votes
13
replies
15k
views
8 follow
duplicate 'row.names' are not allowed
RNA-Seq software error R
updated 5.4 years ago by ▴ 10 • written 5.9 years ago by ▴ 130
1
vote
2
replies
2.0k
views
multicuv error Could not find indexes
RNA-Seq alignment software error
updated 5.9 years ago by ★ 1.6k • written 5.9 years ago by ▴ 130
2
votes
4
replies
5.0k
views
memory is low reading termination?
RNA-Seq alignment next-gen
updated 6.0 years ago by 142k • written 6.0 years ago by ▴ 130
3
votes
6
replies
2.5k
views
how to find new transcript from bam file?
next-gen alignment RNA-Seq
updated 6.0 years ago by ▴ 740 • written 6.0 years ago by ▴ 130
1
vote
4
replies
1.5k
views
Any possible to run cuffdiff without cuffqunt?
RNA-Seq software error next-gen
updated 6.7 years ago by 20 • written 7.3 years ago by ▴ 130
3
votes
8
replies
5.7k
views
How to import reference genome in CLC genomics workbench?
software error next-gen genome
updated 6.9 years ago by 5.8k • written 6.9 years ago by ▴ 130
0
votes
4
replies
1.9k
views
Installation error with funannotate?
RNA-Seq software error alignment next-gen
6.9 years ago by PK ▴ 130
5
votes
8
replies
2.3k
views
How to preform genome annotation?
next-gen alignment genome
updated 7.0 years ago by ★ 1.5k • written 7.0 years ago by ▴ 130
0
votes
0
replies
1.6k
views
How to specify frag len mean and frag len std dev while running cufflinks?
RNA-Seq software error next-gen
updated 7.2 years ago by 20 • written 7.3 years ago by ▴ 130
1
vote
1
reply
945
views
What is difference between default mode and with parameter mode in HTSeq?
RNA-Seq htseq ngs
7.2 years ago by PK ▴ 130
4
votes
8
replies
3.2k
views
How to identify adapters in FASTQ file?
RNA-Seq fastqc ngs
updated 7.2 years ago by 47k • written 7.2 years ago by ▴ 130
0
votes
4
replies
886
views
Data replicating error?
RNA-Seq ngs software error
7.2 years ago by PK ▴ 130
11
votes
9
replies
11k
views
How calculate RPKM values for DESeq?
R RNA-Seq software error
updated 7.2 years ago by ★ 2.0k • written 7.2 years ago by ▴ 130
6
votes
5
replies
1.9k
views
DESeq error of my data?
R RNA-Seq software error
7.2 years ago by PK ▴ 130
6
votes
4
replies
2.5k
views
I got error when i run DESeq None of your conditions is replicated. Use method='blind' to estimate across conditions, or 'pooled-CR', if you have cr…
R RNA-Seq software error
updated 7.2 years ago by ★ 2.0k • written 7.2 years ago by ▴ 130
0
votes
0
replies
1.2k
views
Which parameters to change in Tophat default settings for homosapiens cancer data?
RNA-Seq next-gen software error
7.2 years ago by PK ▴ 130
58 results • Page 1 of 2
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