Profile Posts Awards
Show
all questions tools blogs news tutorials forum answers comments
Showing : all
0
votes
0
replies
167
views
Seeking blacklist (exclusion list) for S. cerevisiae in ChIP-seq analysis
QC blacklist ChIP-seq
12 weeks ago by kalavattam ▴ 190
2
votes
1
reply
244
views
Optimal MACS2/3 configuration for paired-end ChIP-seq data: `-f BAM` versus `-f BAMPE`
MACS3 peak-calling MACS2 ChIP-seq
updated 12 weeks ago by 82k • written 12 weeks ago by ▴ 190
0
votes
0
replies
18k
views
Comment: Comment: BEDOPS gtf2bed conversion error with Ensembl GTF
6 months ago by kalavattam ▴ 190
0
votes
0
replies
1.1k
views
Comment: Comment: Is there a way to subsample Hi-C at Hi-C matrix .cool file?
6 months ago by kalavattam ▴ 190
0
votes
1
reply
1.3k
views
Comment: Comment: How to convert data in r?
6 months ago by kalavattam ▴ 190
1
vote
1
reply
1.3k
views
Comment: Comment: How to convert data in r?
6 months ago by kalavattam ▴ 190
0
votes
0
replies
2.3k
views
Comment: Comment: Seeking feedback on ChIP-seq normalization method: Calculating scaling factors b
7 months ago by kalavattam ▴ 190
0
votes
1
reply
2.3k
views
Comment: Comment: Seeking feedback on ChIP-seq normalization method: Calculating scaling factors b
7 months ago by kalavattam ▴ 190
0
votes
1
reply
1.1k
views
Answer: Answer: Is there a way to subsample Hi-C at Hi-C matrix .cool file?
7 months ago by kalavattam ▴ 190
0
votes
0
replies
1.4k
views
Comment: Comment: ChIP-seq visualization: Is it valid to do a coverage normalization in addition t
7 months ago by kalavattam ▴ 190
0
votes
2
replies
1.4k
views
Comment: Comment: ChIP-seq visualization: Is it valid to do a coverage normalization in addition t
updated 7 months ago by 43k • written 7 months ago by ▴ 190
0
votes
1
reply
675
views
Comment: Comment: Centrality analysis to identify TFs
7 months ago by kalavattam ▴ 190
6
votes
5
replies
1.4k
views
ChIP-seq visualization: Is it valid to do a coverage normalization in addition to applying a spike-in-derived scaling factor?
ChIP-seq normalization scaling-factor coverage spike-in
updated 7 months ago by 43k • written 7 months ago by ▴ 190
0
votes
0
replies
1.2k
views
Answer: Answer: What is an appropriate cut off for p-values and log fold changes during the anal
7 months ago by kalavattam ▴ 190
0
votes
1
reply
2.3k
views
Comment: Comment: Seeking feedback on ChIP-seq normalization method: Calculating scaling factors b
8 months ago by kalavattam ▴ 190
0
votes
0
replies
2.3k
views
Comment: Comment: Seeking feedback on ChIP-seq normalization method: Calculating scaling factors b
8 months ago by kalavattam ▴ 190
0
votes
1
reply
2.3k
views
Comment: Comment: Seeking feedback on ChIP-seq normalization method: Calculating scaling factors b
8 months ago by kalavattam ▴ 190
0
votes
1
reply
2.3k
views
Comment: Comment: Seeking feedback on ChIP-seq normalization method: Calculating scaling factors b
8 months ago by kalavattam ▴ 190
10
votes
11
replies
2.3k
views
Seeking feedback on ChIP-seq normalization method: Calculating scaling factors by dividing input by IP, including spike-in
coverage spike-in scaling-factor ChIP-seq
7 months ago by kalavattam ▴ 190
1
vote
1
reply
634
views
Spike-in normalization via deepTools multiBamSummary --scalingFactors: What's an appropriate --binSize?
spike-in ChIP-seq deepTools
updated 8 months ago by ▴ 900 • written 8 months ago by ▴ 190
0
votes
0
replies
239k
views
Comment: Comment: Tools To Calculate Average Coverage For A Bam File?
8 months ago by kalavattam ▴ 190
0
votes
0
replies
239k
views
Comment: Comment: Tools To Calculate Average Coverage For A Bam File?
8 months ago by kalavattam ▴ 190
2
votes
1
reply
1.0k
views
Comment: Comment: new visualization method for dimension reduction technique
9 months ago by kalavattam ▴ 190
0
votes
0
replies
1.3k
views
Comment: Comment: bowtie2 mapping qualities of 0
9 months ago by kalavattam ▴ 190
0
votes
0
replies
1.6k
views
Comment: Comment: Dealing with multimapped reads with Chip-seq and ATAC-seq data when studying Tra
9 months ago by kalavattam ▴ 190
0
votes
0
replies
1.6k
views
Comment: Comment: MacOS Quicklook plugin for gtf and gff3 files?
11 months ago by kalavattam ▴ 190
0
votes
0
replies
1.6k
views
Comment: Comment: MacOS Quicklook plugin for gtf and gff3 files?
11 months ago by kalavattam ▴ 190
0
votes
0
replies
1.6k
views
Comment: Comment: MacOS Quicklook plugin for gtf and gff3 files?
11 months ago by kalavattam ▴ 190
0
votes
1
reply
1.6k
views
Comment: Comment: MacOS Quicklook plugin for gtf and gff3 files?
11 months ago by kalavattam ▴ 190
0
votes
1
reply
1.6k
views
Comment: Comment: MacOS Quicklook plugin for gtf and gff3 files?
11 months ago by kalavattam ▴ 190
6
votes
17
replies
1.6k
views
MacOS Quicklook plugin for gtf and gff3 files?
gtf gff3 MacOS
updated 11 months ago by 43k • written 11 months ago by ▴ 190
0
votes
1
reply
1.6k
views
Comment: Comment: MacOS Quicklook plugin for gtf and gff3 files?
11 months ago by kalavattam ▴ 190
0
votes
1
reply
1.6k
views
Comment: Comment: MacOS Quicklook plugin for gtf and gff3 files?
11 months ago by kalavattam ▴ 190
0
votes
1
reply
1.6k
views
Comment: Comment: MacOS Quicklook plugin for gtf and gff3 files?
11 months ago by kalavattam ▴ 190
0
votes
0
replies
1.3k
views
Comment: Comment: On "wings" in volcano plots...
11 months ago by kalavattam ▴ 190
0
votes
3
replies
1.3k
views
Comment: Comment: On "wings" in volcano plots...
11 months ago by kalavattam ▴ 190
7
votes
6
replies
1.3k
views
On "wings" in volcano plots...
DEG volcano DGE statistics DE
updated 11 months ago by 82k • written 11 months ago by ▴ 190
0
votes
0
replies
879
views
Comment: Comment: How much resources does HiCanu need to assemble PacBio sequence
12 months ago by kalavattam ▴ 190
0
votes
0
replies
29k
views
Comment: Comment: Bowtie2 parameters for best alignment
13 months ago by kalavattam ▴ 190
1
vote
0
replies
338
views
Split RNA-seq bam by strand: normalize before or after split?
strand forward RNA-seq bam reverse
17 months ago by kalavattam ▴ 190
0
votes
0
replies
3.1k
views
Answer: Answer: Merge STAR Log.final.out files together
21 months ago by kalavattam ▴ 190
0
votes
1
reply
1.4k
views
Comment: Comment: Mapping reads using kallisto - rna seq analysis
21 months ago by kalavattam ▴ 190
0
votes
0
replies
858
views
Comment: Comment: Reference Annotation GTF that includes piRNAs?
21 months ago by kalavattam ▴ 190
0
votes
1
reply
858
views
Comment: Comment: Reference Annotation GTF that includes piRNAs?
21 months ago by kalavattam ▴ 190
0
votes
1
reply
1.4k
views
Comment: Comment: Mapping reads using kallisto - rna seq analysis
21 months ago by kalavattam ▴ 190
0
votes
0
replies
1.3k
views
Comment: Comment: Quick way to get a field such as QNAME from the last read in a bam file?
8 months ago by kalavattam ▴ 190
0
votes
1
reply
1.3k
views
Comment: Comment: Quick way to get a field such as QNAME from the last read in a bam file?
22 months ago by kalavattam ▴ 190
0
votes
1
reply
1.3k
views
Comment: Comment: Quick way to get a field such as QNAME from the last read in a bam file?
22 months ago by kalavattam ▴ 190
2
votes
6
replies
1.3k
views
Quick way to get a field such as QNAME from the last read in a bam file?
bam samtools
8 months ago by kalavattam ▴ 190
1
vote
1
reply
840
views
Fast way to sort bam file by queryname similar to picard SortSam SORT_ORDER=queryname?
picard samtools bam
updated 10 months ago by 43k • written 22 months ago by ▴ 190
66 results • Page 1 of 2
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6