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470
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Answer: Answer: I got qlen = 276 using bam_cigar2qlen in htslib but I count that cigar by myself
5 months ago by John Marshall 3.1k
3
votes
1
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497
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Answer: Answer: when I use htslib to write a bam. Error of "truncated file" shows by samtools
5 months ago by John Marshall 3.1k
1
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0
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565
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Comment: Comment: I am unsure why my files are not being accepted in bedtools jaccard, any tips?
7 months ago by John Marshall 3.1k
0
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0
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1.8k
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Comment: Comment: sam format in the emboss water program
13 months ago by John Marshall 3.1k
0
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1
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1.8k
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Comment: Comment: sam format in the emboss water program
13 months ago by John Marshall 3.1k
2
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1
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1.8k
views
Comment: Comment: sam format in the emboss water program
13 months ago by John Marshall 3.1k
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0
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2.5k
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Comment: Comment: Read block operation failed with BAM file
14 months ago by John Marshall 3.1k
0
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0
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2.5k
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Comment: Comment: Read block operation failed with BAM file
14 months ago by John Marshall 3.1k
2
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2
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2.5k
views
Answer: Answer: Read block operation failed with BAM file
14 months ago by John Marshall 3.1k
0
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0
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809
views
Answer: Answer: bcftools view -r issue
14 months ago by John Marshall 3.1k
2
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1
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2.8k
views
Answer: Answer: Using Bioconda with Mac M1 Processor?
16 months ago by John Marshall 3.1k
3
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0
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144k
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Answer: Answer: from .BAM to .BAI using samtools
17 months ago by John Marshall 3.1k
2
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0
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1.7k
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Comment: Comment: samtools install error
19 months ago by John Marshall 3.1k
3
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1
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1.7k
views
Answer: Answer: samtools install error
19 months ago by John Marshall 3.1k
0
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0
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3.1k
views
Comment: Comment: Tabix '[E::get_intv] Failed to parse TBX_VCF' error
2.3 years ago by John Marshall 3.1k
1
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0
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17k
views
Answer: Answer: How to efficiently remove a list of reads from BAM file?
2.3 years ago by John Marshall 3.1k
0
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0
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3.1k
views
Comment: Comment: Tabix '[E::get_intv] Failed to parse TBX_VCF' error
2.3 years ago by John Marshall 3.1k
3
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3
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3.1k
views
Answer: Answer: Tabix '[E::get_intv] Failed to parse TBX_VCF' error
2.4 years ago by John Marshall 3.1k
0
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1
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3.1k
views
Comment: Comment: Tabix '[E::get_intv] Failed to parse TBX_VCF' error
2.4 years ago by John Marshall 3.1k
2
votes
1
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3.2k
views
Comment: Comment: bwa 0.7.18 download to fix compile fail with GCC 10
2.5 years ago by John Marshall 3.1k
4
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2
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3.2k
views
Answer: Answer: bwa 0.7.18 download to fix compile fail with GCC 10
7 months ago by John Marshall 3.1k
0
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0
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1.7k
views
Comment: Comment: Weird behavior of `--max-depth` argument from `bcftools mpileup` command when it
2.6 years ago by John Marshall 3.1k
4
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1
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3.7k
views
Answer: Answer: Is there equivalent of bgzip in Python?
2.7 years ago by John Marshall 3.1k
0
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0
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2.8k
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Comment: Comment: I wonder if someone please explain what secondary, supplementary, duplicates and
2.7 years ago by John Marshall 3.1k
4
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2
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4.1k
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Answer: Answer: Why piping a conda command into bash doesn't work ?
2.7 years ago by John Marshall 3.1k
2
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2
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1.4k
views
Comment: Comment: Convert SAM to BAM error
2.8 years ago by John Marshall 3.1k
4
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0
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1.4k
views
Answer: Answer: Convert SAM to BAM error
2.8 years ago by John Marshall 3.1k
3
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1
reply
1.1k
views
Answer: Answer: Determine fragment alignment overlaps by parsing CIGAR string in the MC tag
2.9 years ago by John Marshall 3.1k
0
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1
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3.0k
views
Comment: Comment: samtools view not removing unwanted headers
3.0 years ago by John Marshall 3.1k
4
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2
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38k
views
Comment: Comment: bcftools: error while loading shared libraries: libcrypto.so.1.0.0: cannot open
3.1 years ago by John Marshall 3.1k
3
votes
0
replies
5.3k
views
Answer: Answer: building bcftools: curl/curl.h: No such file or directory
3.2 years ago by John Marshall 3.1k
3
votes
1
reply
1.6k
views
Answer: Answer: WHAT IS NA12878?
3.2 years ago by John Marshall 3.1k
0
votes
2
replies
2.5k
views
Comment: Comment: Exec format error in unmapped bam file
3.2 years ago by John Marshall 3.1k
0
votes
2
replies
2.5k
views
Answer: Answer: Exec format error in unmapped bam file
3.2 years ago by John Marshall 3.1k
0
votes
0
replies
2.5k
views
Answer: Answer: Fasta.fai file error
3.2 years ago by John Marshall 3.1k
1
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1
reply
2.5k
views
Comment: Comment: Fasta.fai file error
3.2 years ago by John Marshall 3.1k
1
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0
replies
2.5k
views
Comment: Comment: Fasta.fai file error
3.2 years ago by John Marshall 3.1k
1
vote
1
reply
2.0k
views
Answer: Answer: samtools returns error - cigar and query sequence are of different length even t
3.2 years ago by John Marshall 3.1k
2
votes
1
reply
9.8k
views
Comment: Comment: Dual index barcode demultiplex issue
3.3 years ago by John Marshall 3.1k
0
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0
replies
4.2k
views
Comment: Comment: Probable bug in bcftools while parsing headers
3.3 years ago by John Marshall 3.1k
6
votes
2
replies
38k
views
Answer: Answer: bcftools: error while loading shared libraries: libcrypto.so.1.0.0: cannot open
3.4 years ago by John Marshall 3.1k
6
votes
0
replies
2.1k
views
Answer: Answer: bcftools vcf2sex
3.7 years ago by John Marshall 3.1k
0
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0
replies
9.1k
views
Comment: C: samtools addreplacerg gives error
3.7 years ago by John Marshall 3.1k
5
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1
reply
3.6k
views
Answer: A: bcftools +fill-tag does not work in loop
3.7 years ago by John Marshall 3.1k
0
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1
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1.6k
views
Comment: C: Samtools Faidx Error Message
3.9 years ago by John Marshall 3.1k
0
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1
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1.6k
views
Comment: C: Samtools Faidx Error Message
3.9 years ago by John Marshall 3.1k
1
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1
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1.6k
views
Answer: A: Samtools Faidx Error Message
3.9 years ago by John Marshall 3.1k
0
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0
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3.5k
views
Comment: C: How to fix minimap2 -> samtools sort error (samtools sort: truncated file. Abort
3.9 years ago by John Marshall 3.1k
2
votes
0
replies
3.4k
views
Answer: A: How can I get the uncompressed size of a BGZIP file ?
4.0 years ago by John Marshall 3.1k
6
votes
1
reply
4.1k
views
Answer: A: How to filter out chromosome regions from a .bam file
4.0 years ago by John Marshall 3.1k
168 results • Page 1 of 4
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