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2
votes
6
replies
1.3k
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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
856
views
Fast way to sort bam file by queryname similar to picard SortSam SORT_ORDER=queryname?
picard
samtools
bam
updated 10 months ago by
Ram
43k • written 22 months ago by
kalavattam
▴ 190
0
votes
0
replies
9.0k
views
Comment:
Comment: How does salmon deal with decoy?
23 months ago by
kalavattam
▴ 190
0
votes
0
replies
1.5k
views
Comment:
Comment: How to remove Mate mapped to a different chromosome
2.1 years ago by
kalavattam
▴ 190
0
votes
0
replies
2.2k
views
Comment:
Comment: Duplicate reads remain in bam after picard MarkDuplicates --REMOVE_DUPLICATES tr
2.2 years ago by
kalavattam
▴ 190
0
votes
1
reply
2.2k
views
Comment:
Comment: Duplicate reads remain in bam after picard MarkDuplicates --REMOVE_DUPLICATES tr
2.2 years ago by
kalavattam
▴ 190
1
vote
4
replies
2.2k
views
Duplicate reads remain in bam after picard MarkDuplicates --REMOVE_DUPLICATES true
deduplication
qname
fastq
Picard
bam
2.2 years ago by
kalavattam
▴ 190
0
votes
0
replies
583
views
Align sample to two different assemblies, then classify pairs that differ significantly in alignment score
Bowtie2
classification
mismatch
alignment
gaps
2.6 years ago by
kalavattam
▴ 190
2
votes
1
reply
1.9k
views
Answer:
Answer: How to study transposable elements expression relationship with its closest gene
2.6 years ago by
kalavattam
▴ 190
1
vote
0
replies
2.1k
views
Answer:
Answer: How to analysis 4c seq 3c seq data
3.1 years ago by
kalavattam
▴ 190
0
votes
0
replies
1.1k
views
Answer:
Answer: recent Hi-C databases
3.1 years ago by
kalavattam
▴ 190
0
votes
0
replies
993
views
Comment:
Comment: Bioinformatics definition of TAD boundary
3.0 years ago by
kalavattam
▴ 190
0
votes
0
replies
4.3k
views
Comment:
Comment: ICE normalization using JuicerTools
3.1 years ago by
kalavattam
▴ 190
3
votes
0
replies
694
views
Answer:
Answer: HI-C analysis in the cloud environment
3.1 years ago by
kalavattam
▴ 190
0
votes
1
reply
4.3k
views
Answer:
Answer: ICE normalization using JuicerTools
3.1 years ago by
kalavattam
▴ 190
0
votes
0
replies
579
views
Plot only the genome-wide trans contacts in a Hi-C matrix (no cis contacts)
juicer
Hi-C
inter-chromosomal
cooler
trans
3.1 years ago by
kalavattam
▴ 190
1
vote
0
replies
20k
views
Comment:
C: How to get all genes for a specific list of regions in R preferably using Biomar
3.6 years ago by
kalavattam
▴ 190
4
votes
2
replies
9.0k
views
Answer:
C: MACS2 --SPMR and --nolambda usage for version 2.1.2
5.1 years ago by
kalavattam
▴ 190
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