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662
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How to speed up pileup from Rsamtools?
Rsamtools pileup
21 months ago alexandr.gopanenko ▴ 50
1
vote
0
replies
803
views
Over Representation Analysis using PFAM/InterPro database
PFAM.db clusterProfiler
2.3 years ago alexandr.gopanenko ▴ 50
0
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0
replies
3.2k
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Comment: Comment: fgsea usage question - what gene set to use?
4.0 years ago alexandr.gopanenko ▴ 50
2
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2
replies
3.2k
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fgsea usage question - what gene set to use?
fgsea
4.0 years ago alexandr.gopanenko ▴ 50
0
votes
0
replies
1.2k
views
Comment: Comment: ribosomeProfilingQC - countReads function - is it possible to consider library
4.0 years ago alexandr.gopanenko ▴ 50
1
vote
4
replies
1.2k
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ribosomeProfilingQC - countReads function - is it possible to consider library type - non-stranded, forward-stranded or rev-stransded?
ribosomeProfilingQC countReads
4.0 years ago alexandr.gopanenko ▴ 50
0
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0
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1.2k
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Comment: Comment: ribosomeProfilingQC - countReads function - is it possible to consider library
4.0 years ago alexandr.gopanenko ▴ 50
0
votes
1
reply
1.3k
views
DESeq2 - shrunken LFC calculation
apeglm DESeq2
updated 4.1 years ago by 43k • written 4.1 years ago by ▴ 50
0
votes
1
reply
831
views
Subsetting the bamfile by readlength and extracting the information about distribution the SNV across these reads length
Rsamtools
updated 4.9 years ago by 25k • written 4.9 years ago by ▴ 50
0
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0
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975
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Comment: C: RNA-seq analysis with DESeq2
5.0 years ago alexandr.gopanenko ▴ 50
2
votes
2
replies
975
views
RNA-seq analysis with DESeq2
deseq2
updated 5.0 years ago by ▴ 280 • written 5.0 years ago by ▴ 50
0
votes
1
reply
1.1k
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What tool for reads alignment are prefereble for wavClusteR input bams?
wavcluster
updated 8.2 years ago by ▴ 100 • written 8.2 years ago by ▴ 50
0
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0
replies
2.3k
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Comment: C: How to extract only mRNA from TxDb object?
8.3 years ago alexandr.gopanenko ▴ 50
4
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3
replies
2.3k
views
How to extract only mRNA from TxDb object?
genomicfeatures
updated 2.6 years ago by ▴ 40 • written 8.3 years ago by ▴ 50
0
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0
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2.6k
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Comment: C: How to combine replicates creating heatmap?
8.3 years ago alexandr.gopanenko ▴ 50
1
vote
3
replies
2.6k
views
How to combine replicates creating heatmap?
deseq2 edgeR heatmap.2
updated 8.3 years ago by 43k • written 8.3 years ago by ▴ 50
0
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0
replies
1.4k
views
Comment: C: Analysis of Ribo-seq with poly(A) mRNA RNA-seq
8.3 years ago alexandr.gopanenko ▴ 50
2
votes
2
replies
1.4k
views
Analysis of Ribo-seq with poly(A) mRNA RNA-seq
deseq2 genomicfeatures genomicalignments
updated 8.3 years ago by 43k • written 8.3 years ago by ▴ 50
0
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0
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2.2k
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Comment: C: Problem with systemPipeR package: run_edgeR or run_DESeq2 functions don't work
8.4 years ago alexandr.gopanenko ▴ 50
1
vote
2
replies
2.2k
views
Problem with systemPipeR package: run_edgeR or run_DESeq2 functions don't work
systempiper run_edgeR
updated 8.4 years ago by ★ 1.7k • written 8.4 years ago by ▴ 50
0
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0
replies
1.1k
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Comment: C: How to extract transcripts from Txdb with length >100
8.4 years ago alexandr.gopanenko ▴ 50
4
votes
2
replies
1.1k
views
How to extract transcripts from Txdb with length >100
genomicfeatures rtracklayer
updated 8.4 years ago by 25k • written 8.4 years ago by ▴ 50
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