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<prev • 206 results • page 1 of 7 • next >
1
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.bam mpileup mapping quality
samtools mapq mpileup sanger fastq written 9 days ago by saar.armon • 0 • updated 1 day ago by jkbonfield • 170
1
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1
answer
55
views
1
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Consensus sequence from multiple BAM files on a single position
bam samtools mpileup written 3 days ago by Federico Giorgi • 500 • updated 1 day ago by jkbonfield • 170
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0
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256
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0
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Command line explain
bcftools mpileup written 7 weeks ago by f1978hp • 20 • updated 7 weeks ago by finswimmer ♦ 12k
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0
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71
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0
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Difference between mpileup and HaplotypeCaller -ERC BP_RESOLUTION
variant calling haplotypecaller mpileup written 9 weeks ago by CY • 370
4
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1
answer
199
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1
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Samtools mplileup detects wrong INDEL positions
variant calling samtools count nuceotides mpileup written 9 weeks ago by vit.filippo • 40 • updated 9 weeks ago by finswimmer ♦ 12k
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1
answer
117
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1
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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 10 weeks ago by prernagoel04 • 0 • updated 10 weeks ago by H.Hasani • 780
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121
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Samtools mpileup with 10x data
samtools mpileup written 4 months ago by lali1 • 0
3
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1
answer
159
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1
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Unexpected characters at consensus fasta generated by mpileup
samtools consensussequence mpileup written 4 months ago by gokberk • 60
2
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2
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506
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2
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Read position bias (RPB and PV4) fields from samtools mpileup: how to get them?
rpb variant mpileup snp call written 16 months ago by Macspider • 2.9k • updated 4 months ago by al.bodrug • 50
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268
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bcftools mpileup --max depth : What would be a reasonable setting for this option?
consensus bcftools mpileup written 4 months ago by Cookie-san • 40
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1
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196
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1
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Samtools mpileup - Sudden decrease of coverage at homopolymer regions
samtools mapping mpileup written 5 months ago by Louis Kok • 10 • updated 5 months ago by Kevin Blighe ♦ 48k
0
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0
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232
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Are both samtools mpileup options -m and -F only related to indel detection?
next-gen alignment samtools mpileup snp written 7 months ago by serpalma.v • 20
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0
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256
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0
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From mpileup on bam files to TMB calculation, how is it done?
snps bam mutations mpileup tmb written 7 months ago by Pin.Bioinf • 260
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387
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Multimapping reads intervention in SNP calling
alignment samtools snp mpileup written 9 months ago by sambioinfo2018 • 0 • updated 7 months ago by Biostar ♦♦ 20
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1
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2.8k
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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 4.2 years ago by bobrowdy123 • 0 • updated 7 months ago by Biostar ♦♦ 20
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2
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2
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Mpileup Segmentation Fault
mpileup written 7.0 years ago by AW • 350 • updated 7 months ago by Biostar ♦♦ 20
0
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0
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454
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SNP calling using samtools
rnaseq samtools bcftools snp mpileup written 8 months ago by ankit hinsu • 10 • updated 7 months ago by Biostar ♦♦ 20
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0
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433
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getting the HOM_REF genotypes using bcftools mpileup+call ?
bcftools variant call mpileup genotype written 7 months ago by Pierre Lindenbaum ♦ 122k • updated 7 months ago by RamRS ♦ 24k
3
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574
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Variant Calling (Samtools Mpileup): Error
variant calling samtools bcftools mpileup written 8 months ago by venuraherath • 20
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1.0k
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6 follow
0
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Confused about how to generate a consensus sequence after bwa
samtools bwa mpileup written 9 months ago by DNAngel • 30
0
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1
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680
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1
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bcftools mpileup no output (empty calls.bcf file)
consensus bcftools samtools mpileup calls.bcf written 9 months ago by RobertUt • 10
1
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1
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385
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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 9 months ago by serpalma.v • 20
2
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1
answer
407
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1
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I16 Info Tag
bcftools snp mpileup sequencing written 9 months ago by tbb21 • 10 • updated 9 months ago by finswimmer ♦ 12k
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2
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11k
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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 7.6 years ago by Deniz • 50 • updated 10 months ago by zx8754 ♦ 8.2k
2
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1
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767
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1
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How to read an mpileup file from Samtools into Python
python next-gen samtools mpileup written 11 months ago by M.O.L.S • 10
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0
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0
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Using samtools to assess the number of reads that cover a variant position, as well as the ratio of ref/alt among those reads
allele balance bam samtools rna-seq mpileup written 11 months ago by claudiadast • 0
2
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1
answer
368
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1
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How to read my Samtools mpileup?
samtools student mpileup written 11 months ago by c.clarido • 50 • updated 11 months ago by finswimmer ♦ 12k
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1
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456
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1
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Samtools mpileup genotype likelihood no PL field when all individuals are 0/0
pl samtools mpileup written 11 months ago by cetin.m • 30 • updated 11 months ago by Santosh Anand ♦ 4.9k
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1.8k
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bcftools mpileup output format
bcftools mpileup written 12 months ago by tarek.mohamed • 250
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410
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0
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How to add sequence information to vcf from MPileup
vcf bam snp mpileup rna-seq written 12 months ago by helge.fluess • 0
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