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Answer:
Answer: Generating consensus sequence from bam file
7 weeks ago by
jkbonfield
★ 1.2k
1
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0
replies
1.2k
views
Answer:
Answer: Merging CRAM files
10 months ago by
jkbonfield
★ 1.2k
2
votes
1
reply
1.1k
views
Answer:
Answer: Filter bam file based on cigar string?
10 months ago by
jkbonfield
★ 1.2k
0
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1
reply
34k
views
Answer:
Answer: Generating consensus sequence from bam file
10 months ago by
jkbonfield
★ 1.2k
0
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0
replies
919
views
Answer:
Answer: Problem generating a .vcf after upgrade of samtools and bcftools
13 months ago by
jkbonfield
★ 1.2k
1
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0
replies
1.5k
views
Answer:
Answer: sam.gz files to bam using samtools
14 months ago by
jkbonfield
★ 1.2k
1
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1
reply
1.0k
views
Answer:
Answer: reference for freebayes or samtools mpileup after extracting chromosome from ali
14 months ago by
jkbonfield
★ 1.2k
2
votes
1
reply
1.5k
views
Answer:
Answer: samtools calmd and original base quality
15 months ago by
jkbonfield
★ 1.2k
1
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0
replies
2.7k
views
Answer:
Answer: samtools sort operation very slow, bottle-neck is external hard drive?
15 months ago by
jkbonfield
★ 1.2k
4
votes
1
reply
1.2k
views
Answer:
Answer: Samtools equivalent of "CleanSam" Picard GATK?
17 months ago by
jkbonfield
★ 1.2k
4
votes
1
reply
735
views
Answer:
Answer: Indexing a BAM file without read names
19 months ago by
jkbonfield
★ 1.2k
1
vote
1
reply
1.7k
views
Answer:
Answer: How to properly pass from samtools rmdup to samtools markdup
20 months ago by
jkbonfield
★ 1.2k
0
votes
1
reply
1.8k
views
Answer:
Answer: How to obtain fasta sequences at only mapped sites
21 months ago by
jkbonfield
★ 1.2k
3
votes
1
reply
1.4k
views
Answer:
Answer: Samtools mean depth and max depth results are discordant
22 months ago by
jkbonfield
★ 1.2k
1
vote
2
replies
1.7k
views
Answer:
Answer: Samtools merge/ "The File BAM exists" warning
22 months ago by
jkbonfield
★ 1.2k
0
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0
replies
1.4k
views
Answer:
Answer: Samtools flagstat result
2.3 years ago by
jkbonfield
★ 1.2k
2
votes
1
reply
3.3k
views
Answer:
Answer: CRAM to BAM using SAMTOOLS
2.8 years ago by
jkbonfield
★ 1.2k
2
votes
0
replies
1.1k
views
Answer:
Answer: Count the numfer of reads supporting a pattern from a BAM file
2.9 years ago by
jkbonfield
★ 1.2k
3
votes
1
reply
4.6k
views
Answer:
Answer: how to use the samtools filtering expression ?
3.0 years ago by
jkbonfield
★ 1.2k
8
votes
1
reply
3.9k
views
Answer:
Answer: samtools/bcftools mpileup -B option: to use it or not in order to reduce the occ
3.0 years ago by
jkbonfield
★ 1.2k
2
votes
0
replies
3.2k
views
Answer:
Answer: Samtools sort: too many open files error
3.1 years ago by
jkbonfield
★ 1.2k
2
votes
1
reply
1.5k
views
Answer:
A: Converting CRAM slices to get a CRAM file
3.4 years ago by
jkbonfield
★ 1.2k
1
vote
2
replies
7.3k
views
Answer:
A: filter reads in BAM having a tag
3.4 years ago by
jkbonfield
★ 1.2k
1
vote
1
reply
1.4k
views
Answer:
A: Read name not stored in CRAM file. Is it possible to create new read names for r
3.5 years ago by
jkbonfield
★ 1.2k
2
votes
0
replies
3.1k
views
Answer:
A: What is the difference of output samtools depth and samtools view -c on location
4.2 years ago by
jkbonfield
★ 1.2k
2
votes
0
replies
11k
views
Answer:
Answer: BAM files compression
updated 2.8 years ago by
Ram
43k • written 4.3 years ago by
jkbonfield
★ 1.2k
11
votes
0
replies
11k
views
Answer:
A: What is the difference between mpileup samtools and bcftools?
4.3 years ago by
jkbonfield
★ 1.2k
9
votes
1
reply
13k
views
Answer:
A: How does samtools markdup works?
4.3 years ago by
jkbonfield
★ 1.2k
1
vote
0
replies
1.7k
views
Answer:
A: Size of Output BAM file bigger than the SUM Size of Input files after merging wi
4.4 years ago by
jkbonfield
★ 1.2k
1
vote
1
reply
2.0k
views
Answer:
A: How to get chrM chr1 ...chr22 chrX chrY order in my bam file
4.5 years ago by
jkbonfield
★ 1.2k
0
votes
0
replies
919
views
Answer:
A: .bam mpileup mapping quality
4.6 years ago by
jkbonfield
★ 1.2k
0
votes
0
replies
996
views
Answer:
A: Consensus sequence from multiple BAM files on a single position
4.6 years ago by
jkbonfield
★ 1.2k
8
votes
1
reply
3.9k
views
Answer:
A: Is it possible to directly convert fastq to CRAM ?
4.8 years ago by
jkbonfield
★ 1.2k
4
votes
1
reply
6.0k
views
Answer:
A: Issue With CRAM -> BAM -> FASTQ Conversion
4.8 years ago by
jkbonfield
★ 1.2k
3
votes
2
replies
2.5k
views
Answer:
A: Recovering bam files after unknow deletion in the storage
4.9 years ago by
jkbonfield
★ 1.2k
1
vote
0
replies
7.8k
views
Answer:
A: How to add RG tag into the optional field in a BAM file
5.9 years ago by
jkbonfield
★ 1.2k
3
votes
1
reply
1.7k
views
Answer:
A: what should a SAM/BAM record contain when there are no quality scores
6.7 years ago by
jkbonfield
★ 1.2k
1
vote
0
replies
5.5k
views
Answer:
A: Sorting samtools output by flag or grepping its tags
6.7 years ago by
jkbonfield
★ 1.2k
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