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Comment: Comment: Preventing Conda/Mamba from accessing Anaconda repos when institution blocks the
3 days ago by kalavattam ▴ 310
0
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0
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520
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Comment: Comment: Preventing Conda/Mamba from accessing Anaconda repos when institution blocks the
3 days ago by kalavattam ▴ 310
4
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9
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518
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Preventing Conda/Mamba from accessing Anaconda repos when institution blocks them
conda mamba repos miniforge channels
updated 2 days ago by ▴ 850 • written 3 days ago by ▴ 310
0
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1
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520
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Comment: Comment: Preventing Conda/Mamba from accessing Anaconda repos when institution blocks the
3 days ago by kalavattam ▴ 310
0
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0
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320
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Answer: Answer: ChIP-Seq
13 days ago by kalavattam ▴ 310
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0
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329
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Comment: Comment: Hi-C interactions significance
14 days ago by kalavattam ▴ 310
2
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0
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409
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Answer: Answer: Hi-C Pro
14 days ago by kalavattam ▴ 310
0
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0
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1.0k
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Comment: Comment: Estimating effective genome size when retaining a higher-confidence subset of mu
14 days ago by kalavattam ▴ 310
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2
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1.0k
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Comment: Comment: Estimating effective genome size when retaining a higher-confidence subset of mu
15 days ago by kalavattam ▴ 310
0
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0
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292
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Answer: Answer: merging .cool files of replicates
14 days ago by kalavattam ▴ 310
0
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4
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1.0k
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Estimating effective genome size when retaining a higher-confidence subset of multi-mappers in alignment data
multi-mapper effective-genome-size complexity mapq
updated 14 days ago by 149k • written 15 days ago by ▴ 310
1
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1
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802
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On applying spike-in-derived scaling factors to ChIP-seq data: adjust for background signal (input) or not?
spike-in deepTools normalization ChIP-seq scaling-factor
23 days ago by kalavattam ▴ 310
1
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0
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802
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Answer: Answer: On applying spike-in-derived scaling factors to ChIP-seq data: adjust for backgr
23 days ago by kalavattam ▴ 310
1
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1
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1.4k
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Comment: Comment: Is a SLURM job array submission suitable for parallelizing multiple FASTQ file d
3 months ago by kalavattam ▴ 310
9
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12
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1.4k
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Is a SLURM job array submission suitable for parallelizing multiple FASTQ file downloads?
parallel-computing HPC SLURM FASTQ
updated 3 months ago by ★ 2.1k • written 3 months ago by ▴ 310
0
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0
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424
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Comment: Comment: Bos Taurus, Bos Indicus and Bubalus bubalis GTF,GFF,GFF3 file
4 months ago by kalavattam ▴ 310
0
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0
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424
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Comment: Comment: Bos Taurus, Bos Indicus and Bubalus bubalis GTF,GFF,GFF3 file
4 months ago by kalavattam ▴ 310
0
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0
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695
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Answer: Answer: remove the letter a from a biplot in ggplot
5 months ago by kalavattam ▴ 310
0
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0
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445
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Adjusting MACS3 --slocal and --llocal parameters for small-genome organisms like S. cerevisiae?
yeast poisson ChIP-seq macs3 peak-calling
5 months ago by kalavattam ▴ 310
1
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1
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509
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Seeking advice on methods to calculate ENCODE ChIP-seq data standard M_DISTINCT
ChIP-seq quality-check ENCODE library-complexity
5 months ago by kalavattam ▴ 310
1
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0
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509
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Answer: Answer: Seeking advice on methods to calculate ENCODE ChIP-seq data standard M_DISTINCT
5 months ago by kalavattam ▴ 310
0
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0
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3.8k
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Comment: Comment: Seeking feedback on ChIP-seq normalization method: Calculating scaling factors b
6 months ago by kalavattam ▴ 310
0
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0
replies
742
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Comment: Comment: Low "assigned alignments" in output and high "Unassigned_NoFeatures" in summary
7 months ago by kalavattam ▴ 310
2
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1
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786
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Comment: Comment: What should be the term, "insert" or "insert size"?
7 months ago by kalavattam ▴ 310
1
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0
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657
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Answer: Answer: Does single-end short-read sequencing affect the mapping of mitochondrial and ri
7 months ago by kalavattam ▴ 310
0
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0
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2.7k
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Comment: Comment: How can I convert multiple bam files in a directory into fastq files using samt
7 months ago by kalavattam ▴ 310
0
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2
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2.7k
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Comment: Comment: How can I convert multiple bam files in a directory into fastq files using samt
7 months ago by kalavattam ▴ 310
0
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1
reply
2.7k
views
Comment: Comment: How can I convert multiple bam files in a directory into fastq files using samt
7 months ago by kalavattam ▴ 310
0
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1
reply
2.7k
views
Comment: Comment: How can I convert multiple bam files in a directory into fastq files using samt
7 months ago by kalavattam ▴ 310
0
votes
1
reply
2.7k
views
Comment: Comment: How can I convert multiple bam files in a directory into fastq files using samt
7 months ago by kalavattam ▴ 310
0
votes
1
reply
2.7k
views
Comment: Comment: How can I convert multiple bam files in a directory into fastq files using samt
7 months ago by kalavattam ▴ 310
0
votes
1
reply
2.7k
views
Comment: Comment: How can I convert multiple bam files in a directory into fastq files using samt
7 months ago by kalavattam ▴ 310
0
votes
1
reply
2.7k
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Comment: Comment: How can I convert multiple bam files in a directory into fastq files using samt
7 months ago by kalavattam ▴ 310
3
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2
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2.7k
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Answer: Answer: How can I convert multiple bam files in a directory into fastq files using samt
7 months ago by kalavattam ▴ 310
0
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0
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3.3k
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Answer: Answer: Reheadering a subsetted bam gives truncated file
7 months ago by kalavattam ▴ 310
1
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1
reply
864
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Comment: Comment: What is the difference between Enrichr and ShinyGO? Which one is the best?
7 months ago by kalavattam ▴ 310
1
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1
reply
864
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Comment: Comment: What is the difference between Enrichr and ShinyGO? Which one is the best?
7 months ago by kalavattam ▴ 310
1
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3
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1.1k
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Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read reverse strand" (flag 32/0x20)
PE BAM SAM flag paired-end
9 months ago by kalavattam ▴ 310
1
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0
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1.1k
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Answer: Answer: Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read
9 months ago by kalavattam ▴ 310
0
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0
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1.1k
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Comment: Comment: Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read
9 months ago by kalavattam ▴ 310
0
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0
replies
384
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Seeking blacklist (exclusion list) for S. cerevisiae in ChIP-seq analysis
QC blacklist ChIP-seq
12 months ago by kalavattam ▴ 310
2
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1
reply
527
views
Optimal MACS2/3 configuration for paired-end ChIP-seq data: `-f BAM` versus `-f BAMPE`
MACS3 peak-calling MACS2 ChIP-seq
updated 12 months ago by 87k • written 12 months ago by ▴ 310
0
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0
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20k
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Comment: Comment: BEDOPS gtf2bed conversion error with Ensembl GTF
16 months ago by kalavattam ▴ 310
0
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0
replies
1.7k
views
Comment: Comment: Is there a way to subsample Hi-C at Hi-C matrix .cool file?
16 months ago by kalavattam ▴ 310
0
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1
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1.9k
views
Comment: Comment: How to convert data in r?
16 months ago by kalavattam ▴ 310
1
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1
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1.9k
views
Comment: Comment: How to convert data in r?
16 months ago by kalavattam ▴ 310
0
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0
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3.8k
views
Comment: Comment: Seeking feedback on ChIP-seq normalization method: Calculating scaling factors b
17 months ago by kalavattam ▴ 310
0
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1
reply
3.8k
views
Comment: Comment: Seeking feedback on ChIP-seq normalization method: Calculating scaling factors b
17 months ago by kalavattam ▴ 310
0
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1
reply
1.7k
views
Answer: Answer: Is there a way to subsample Hi-C at Hi-C matrix .cool file?
17 months ago by kalavattam ▴ 310
0
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0
replies
2.3k
views
Comment: Comment: ChIP-seq visualization: Is it valid to do a coverage normalization in addition t
17 months ago by kalavattam ▴ 310
106 results • Page 1 of 3
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