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<prev • 193 results • page 1 of 7 • next >
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SNP calling using samtools
rnaseq samtools bcftools snp mpileup written 12 days ago by ankit4035hinsu • 10
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187
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Variant Calling (Samtools Mpileup): Error
variant calling samtools bcftools mpileup written 14 days ago by venuraherath • 20
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106
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Multimapping reads intervention in SNP calling
alignment samtools snp mpileup written 5 weeks ago by sambioinfo2018 • 0 • updated 15 days ago by Biostar ♦♦ 20
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277
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5 follow
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Confused about how to generate a consensus sequence after bwa
samtools bwa mpileup written 6 weeks ago by DNAngel • 20
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195
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1
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bcftools mpileup no output (empty calls.bcf file)
consensus bcftools samtools mpileup calls.bcf written 6 weeks ago by RobertUt • 10
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bcftool (mpileup, call) extremely slow on 60 BAMs (WGS 20x)
bcftools samtools mpileup snp wgs written 6 weeks ago by serpalma.v • 20
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I16 Info Tag
bcftools snp mpileup sequencing written 6 weeks ago by tbb21 • 0 • updated 6 weeks ago by finswimmer ♦ 9.0k
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12 follow
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How To Create A Venn Diagram Of Sample1.Vcf, Sample2.Vcf And Sample1&2(Union).Vcf Files
vcftools mpileup written 7.0 years ago by Deniz • 50 • updated 9 weeks ago by zx8754 ♦ 6.2k
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How to read an mpileup file from Samtools into Python
python next-gen samtools mpileup written 3 months ago by M.O.L.S • 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 12 weeks ago by claudiadast • 0
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146
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How to read my Samtools mpileup?
samtools student mpileup written 3 months ago by c.clarido • 40 • updated 3 months ago by finswimmer ♦ 9.0k
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Samtools mpileup genotype likelihood no PL field when all individuals are 0/0
pl samtools mpileup written 3 months ago by cetin.m • 10 • updated 3 months ago by Santosh Anand ♦ 4.4k
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bcftools mpileup output format
bcftools mpileup written 4 months ago by tarek.mohamed • 220
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How to add sequence information to vcf from MPileup
vcf bam snp mpileup rna-seq written 4 months ago by helge.fluess • 0
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Bcftools view options for SNPs calling.
bcftools samtools snp mpileup written 3.5 years ago by Eddie_I • 20 • updated 5 months ago by Kevin Blighe ♦ 35k
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Order of samtools mpileup - arbitrary or not?
samtools mpileup written 5 months ago by blur • 90 • updated 5 months ago by Devon Ryan ♦ 87k
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Calculate average mapping quality at a position
mapping quality mpileup written 5 months ago by hpapoli • 70 • updated 5 months ago by Gabriel R. • 2.5k
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samtools mpileup `error uninitialized value $l in numeric lt` during BAM to FASTA conversion
fasta samtolls mpileup bam written 6 months ago by marongiu.luigi • 350
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7 follow
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Samtools mpileup degenerative characters
samtools degenrative characters mpileup written 18 months ago by bruseq • 20 • updated 6 months ago by swbarnes2 ♦ 4.7k
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How to keep sample name while using samtools mpileup + varscan to do variant call?
varscan samtools mpileup written 6 months ago by MatthewP • 30 • updated 6 months ago by Pierre Lindenbaum ♦ 116k
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Can you get mpileup to report positions with coverage of 0?
samtools mpileup written 6 months ago by blur • 90 • updated 6 months ago by Devon Ryan ♦ 87k
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349
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Samtools mpileup returns empty vcf file
samtools mpileup written 7 months ago by shreyasibiswas88 • 30 • updated 7 months ago by RamRS ♦ 20k
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Mpileup generation using Bisulfite converted reference
mpileup faidx samtools bismark bisulfite written 7 months ago by kspata • 40
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Samtools mpileup meaning of IMF and IDV
vcf samtools mpileup written 3.4 years ago by cruckert8 • 20 • updated 8 months ago by elzedleeu • 20
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264
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Read position bias (RPB and PV4) fields from samtools mpileup: how to get them?
rpb variant mpileup snp call written 8 months ago by Macspider • 2.7k • updated 8 months ago by al.bodrug • 50
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Creating a Zebrafish reference genome for use by mpileup
vcf variant calling faidx rna-seq mpileup written 8 months ago by dominicdhall • 40
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samtools mpileup output only contains vcf header
variant calling samtools mpileup written 8 months ago by s102060125 • 10 • updated 8 months ago by swbarnes2 ♦ 4.7k
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metagenomic assembly coverage, for multiple samples
bowtie2 metagenomics samtools coverage mpileup written 9 months ago by willnotburn • 40
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Clarification on Bedtools Intersect Usage
bedtools intersect samtools mpileup bam written 9 months ago by Noam Teyssier • 40 • updated 9 months ago by Kevin Blighe ♦ 35k
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mpilup output quality
quality scores samtools mpileup phred33 written 9 months ago by mluypaert • 10
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