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0
votes
2
replies
515
views
Comment: Comment: bcftools not calling variants that appear high quality
7 weeks ago by bertb ▴ 20
0
votes
4
replies
515
views
bcftools not calling variants that appear high quality
bcftools DNAseq snps
updated 7 weeks ago by 165k • written 7 weeks ago by ▴ 20
0
votes
0
replies
859
views
Comment: Comment: How to compare peak profiles for a subset of ChIPseq genes
19 months ago by bertb ▴ 20
2
votes
2
replies
859
views
How to compare peak profiles for a subset of ChIPseq genes
DiffBind composite-peak-profile ChIP-seq
19 months ago by bertb ▴ 20
0
votes
1
reply
746
views
ChIPQC read depth doesn't match BAM files
ChIPseq ChIPQC
updated 2.6 years ago by ★ 2.1k • written 2.7 years ago by ▴ 20
1
vote
1
reply
1.7k
views
DiffBind - Comparing normalization/background methods - how to create a heatmap (as in 7.5)?
DiffBind normalization ChIPseq
updated 2.9 years ago by ★ 2.1k • written 2.9 years ago by ▴ 20
0
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0
replies
1.1k
views
Comment: Comment: help for dba.count settings for RNAPII-ChIP using GRanges peakset
3.1 years ago by bertb ▴ 20
1
vote
2
replies
1.1k
views
help for dba.count settings for RNAPII-ChIP using GRanges peakset
DiffBind ChIPseq
3.1 years ago by bertb ▴ 20
0
votes
0
replies
2.1k
views
Comment: Comment: Problems with dba.analyze in DiffBind - are blacklists/greylists required to obt
3.1 years ago by bertb ▴ 20
3
votes
2
replies
2.1k
views
Problems with dba.analyze in DiffBind - are blacklists/greylists required to obtain DESeq sites?
blacklist dba.analyze ChIPseq greylist diffbind
3.1 years ago by bertb ▴ 20
0
votes
0
replies
1.4k
views
Comment: Comment: DiffBind normalization returned NULL
3.1 years ago by bertb ▴ 20
3
votes
2
replies
1.4k
views
DiffBind normalization returned NULL
DiffBind dba.normalize normalization ChIPseq
3.1 years ago by bertb ▴ 20
0
votes
1
reply
1.3k
views
Comment: C: error when running NGS tools in bash script
4.3 years ago by bertb ▴ 20
0
votes
4
replies
1.3k
views
error when running NGS tools in bash script
software error automation scripting
4.3 years ago by bertb ▴ 20
3
votes
10
replies
3.9k
views
how to identify where multi-mappers, or "non primary hits" are mapping to
RNA-Seq alignment next-gen
updated 4.3 years ago by 20 • written 4.4 years ago by ▴ 20
0
votes
0
replies
935
views
bam_stat.py and featureCounts stats don't seem to make sense (to me)
RNA-Seq alignment
4.4 years ago by bertb ▴ 20
0
votes
0
replies
4.4k
views
Comment: C: How to filter out chromosome regions from a .bam file
4.4 years ago by bertb ▴ 20
8
votes
4
replies
4.4k
views
How to filter out chromosome regions from a .bam file
RNA-Seq alignment
updated 4.4 years ago by 3.1k • written 4.4 years ago by ▴ 20
0
votes
0
replies
811
views
How to unique mappers become concordant pairs aligned >1 times
RNA-Seq alignment
4.4 years ago by bertb ▴ 20
0
votes
0
replies
3.9k
views
Comment: C: how to identify where multi-mappers, or "non primary hits" are mapping to
4.4 years ago by bertb ▴ 20
0
votes
1
reply
3.9k
views
Comment: C: how to identify where multi-mappers, or "non primary hits" are mapping to
4.4 years ago by bertb ▴ 20
0
votes
1
reply
3.9k
views
Comment: C: how to identify where multi-mappers, or "non primary hits" are mapping to
4.4 years ago by bertb ▴ 20
0
votes
1
reply
3.9k
views
Comment: C: how to identify where multi-mappers, or "non primary hits" are mapping to
4.4 years ago by bertb ▴ 20
0
votes
0
replies
2.3k
views
Comment: C: featureCount with high multimapping fragments
4.4 years ago by bertb ▴ 20
0
votes
0
replies
1.7k
views
Comment: C: Picard CreateSequenceDictionary - file doesn't look right?
4.4 years ago by bertb ▴ 20
0
votes
1
reply
1.7k
views
Comment: C: Picard CreateSequenceDictionary - file doesn't look right?
4.4 years ago by bertb ▴ 20
1
vote
6
replies
1.7k
views
Picard CreateSequenceDictionary - file doesn't look right?
RNA-Seq sequencing
updated 4.4 years ago by 20 • written 4.4 years ago by ▴ 20
0
votes
1
reply
1.7k
views
Comment: C: Picard CreateSequenceDictionary - file doesn't look right?
4.4 years ago by bertb ▴ 20
0
votes
1
reply
2.3k
views
Comment: C: featureCount with high multimapping fragments
4.5 years ago by bertb ▴ 20
0
votes
4
replies
2.3k
views
featureCount with high multimapping fragments
RNA-Seq sequencing
updated 4.5 years ago by 14k • written 4.5 years ago by ▴ 20
0
votes
1
reply
1.7k
views
Comment: C: htseq_counts process "Killed" during SAM alignment record pairs processed
4.5 years ago by bertb ▴ 20
0
votes
3
replies
1.7k
views
htseq_counts process "Killed" during SAM alignment record pairs processed
RNA-Seq next-gen
4.5 years ago by bertb ▴ 20
0
votes
0
replies
1.1k
views
Comment: C: Errors with Picard CollectRnaSeqMetrics
4.5 years ago by bertb ▴ 20
3
votes
2
replies
1.1k
views
Errors with Picard CollectRnaSeqMetrics
RNA-Seq alignment software error
updated 4.5 years ago by 165k • written 4.5 years ago by ▴ 20
0
votes
0
replies
1.6k
views
Comment: C: check_strandedness error with how_are_we_stranded_here tool
4.5 years ago by bertb ▴ 20
0
votes
1
reply
1.6k
views
Comment: C: check_strandedness error with how_are_we_stranded_here tool
4.5 years ago by bertb ▴ 20
1
vote
4
replies
1.6k
views
check_strandedness error with how_are_we_stranded_here tool
RNA-Seq sequencing assembly
4.5 years ago by bertb ▴ 20
0
votes
1
reply
1.3k
views
Comment: C: how_are_we_stranded_here install issue on Xubuntu
4.5 years ago by bertb ▴ 20
0
votes
0
replies
1.3k
views
Comment: C: how_are_we_stranded_here install issue on Xubuntu
4.5 years ago by bertb ▴ 20
4
votes
5
replies
1.3k
views
how_are_we_stranded_here install issue on Xubuntu
RNA-Seq sequencing Assembly
updated 4.5 years ago by 45k • written 4.5 years ago by ▴ 20
0
votes
1
reply
4.1k
views
Comment: C: MACS2 won't build model - too few paired peaks, but I'm not using paired data
6.3 years ago by bertb ▴ 20
0
votes
0
replies
4.1k
views
Comment: C: MACS2 won't build model - too few paired peaks, but I'm not using paired data
6.3 years ago by bertb ▴ 20
0
votes
5
replies
4.1k
views
MACS2 won't build model - too few paired peaks, but I'm not using paired data
ChIP-Seq
6.3 years ago by bertb ▴ 20
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