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<prev • 212 results • page 1 of 8 • next >
2
votes
1
answer
73
views
1
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How to parallelize bcftools mpileup with GNU parallel?
parallel bcftools mpileup written 1 day ago by beausoleilmo • 280 • updated 1 day ago by ATpoint ♦ 28k
2
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0
answers
60
views
0
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What is the difference between mpileup samtools and bcftools?
variant calling bcftools samtools mpileup snp written 1 day ago by beausoleilmo • 280
0
votes
1
answer
111
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1
answer
in bcftools mpileup output, the DP number is not equal to depth in I16 tag
i16 bcftools mpileup written 8 weeks ago by wm • 130 • updated 7 weeks ago by harold.smith.tarheel • 4.5k
0
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0
answers
93
views
0
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Shall I change bcftools mpileup max depth?
variant calliing bcftools sampling mpileup written 11 weeks ago by marongiu.luigi • 450
0
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0
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137
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0
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bcftools mpileup with --region option output wrong consequence
bam bcftools mpileup snp written 12 weeks ago by SSK • 10
0
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1
answer
184
views
1
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How to reconstruct reads or bam file from pileup
alignment samtools mpileup bam written 3 months ago by SSK • 10 • updated 3 months ago by h.mon ♦ 29k
1
vote
1
answer
147
views
1
answer
.bam mpileup mapping quality
samtools mapq mpileup sanger fastq written 4 months ago by saar.armon • 0 • updated 4 months ago by jkbonfield • 250
1
vote
1
answer
172
views
1
answer
Consensus sequence from multiple BAM files on a single position
bam samtools mpileup written 4 months ago by Federico Giorgi • 580 • updated 4 months ago by jkbonfield • 250
5
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0
answers
349
views
0
answers
Command line explain
bcftools mpileup written 6 months ago by f1978hp • 20 • updated 6 months ago by finswimmer ♦ 13k
0
votes
0
answers
148
views
0
answers
Difference between mpileup and HaplotypeCaller -ERC BP_RESOLUTION
variant calling haplotypecaller mpileup written 6 months ago by CY • 460
4
votes
1
answer
262
views
1
answer
Samtools mplileup detects wrong INDEL positions
variant calling samtools count nuceotides mpileup written 6 months ago by vit.filippo • 40 • updated 6 months ago by finswimmer ♦ 13k
0
votes
1
answer
242
views
1
answer
How to calculate allele counts(Ref and alt) using a target bed file and aligned bam sample files
count allele samtools rna-seq mpileup written 6 months ago by prernagoel04 • 0 • updated 6 months ago by H.Hasani • 840
0
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0
answers
650
views
0
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Samtools mpileup with 10x data
samtools mpileup written 8 months ago by lali1 • 0
3
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1
answer
222
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1
answer
Unexpected characters at consensus fasta generated by mpileup
samtools consensussequence mpileup written 8 months ago by gokberk • 60
2
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2
answers
630
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2
answers
Read position bias (RPB and PV4) fields from samtools mpileup: how to get them?
rpb variant mpileup snp call written 20 months ago by Macspider • 3.0k • updated 8 months ago by al.bodrug • 50
1
vote
0
answers
440
views
0
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bcftools mpileup --max depth : What would be a reasonable setting for this option?
consensus bcftools mpileup written 8 months ago by Cookie-san • 40
0
votes
1
answer
295
views
1
answer
Samtools mpileup - Sudden decrease of coverage at homopolymer regions
samtools mapping mpileup written 9 months ago by Louis Kok • 10 • updated 9 months ago by Kevin Blighe ♦ 53k
0
votes
0
answers
298
views
0
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Are both samtools mpileup options -m and -F only related to indel detection?
next-gen alignment samtools mpileup snp written 11 months ago by serpalma.v • 30
0
votes
0
answers
351
views
0
answers
From mpileup on bam files to TMB calculation, how is it done?
snps bam mutations mpileup tmb written 11 months ago by Pin.Bioinf • 270
0
votes
0
answers
528
views
0
answers
Multimapping reads intervention in SNP calling
alignment samtools snp mpileup written 13 months ago by sambioinfo2018 • 0 • updated 11 months ago by Biostar ♦♦ 20
0
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1
answer
3.0k
views
1
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How do I calculate the total read depth and allele frequency using just the target bed file and aligned bam
bed frequency allele mpileup bam written 4.6 years ago by bobrowdy123 • 0 • updated 11 months ago by Biostar ♦♦ 20
1
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2
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3.4k
views
2
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Mpileup Segmentation Fault
mpileup written 7.4 years ago by AW • 350 • updated 12 months ago by Biostar ♦♦ 20
0
votes
0
answers
570
views
0
answers
SNP calling using samtools
rnaseq samtools bcftools snp mpileup written 12 months ago by ankit hinsu • 10 • updated 12 months ago by Biostar ♦♦ 20
2
votes
0
answers
655
views
0
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getting the HOM_REF genotypes using bcftools mpileup+call ?
bcftools variant call mpileup genotype written 12 months ago by Pierre Lindenbaum ♦ 125k • updated 12 months ago by RamRS ♦ 25k
3
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0
answers
843
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0
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Variant Calling (Samtools Mpileup): Error
variant calling samtools bcftools mpileup written 12 months ago by venuraherath • 20
5
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0
answers
1.4k
views
6 follow
0
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Confused about how to generate a consensus sequence after bwa
samtools bwa mpileup written 13 months ago by DNAngel • 40
2
votes
1
answer
901
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5 follow
1
answer
bcftools mpileup no output (empty calls.bcf file)
consensus bcftools samtools mpileup calls.bcf written 13 months ago by RobertUt • 30
1
vote
1
answer
553
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1
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bcftool (mpileup, call) extremely slow on 60 BAMs (WGS 20x)
bcftools samtools mpileup snp wgs written 13 months ago by serpalma.v • 30
2
votes
1
answer
590
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1
answer
I16 Info Tag
bcftools snp mpileup sequencing written 13 months ago by tbb21 • 10 • updated 13 months ago by finswimmer ♦ 13k
12
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2
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12k
views
12 follow
2
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How To Create A Venn Diagram Of Sample1.Vcf, Sample2.Vcf And Sample1&2(Union).Vcf Files
vcftools mpileup written 8.0 years ago by Deniz • 50 • updated 14 months ago by zx8754 ♦ 8.9k
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