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<prev • 200 results • page 1 of 7 • next >
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Samtools mpileup with 10x data
samtools mpileup written 27 days ago by lali1 • 0
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1
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94
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1
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Unexpected characters at consensus fasta generated by mpileup
samtools consensussequence mpileup written 28 days ago by gokberk • 30
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2
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410
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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 13 months ago by Macspider • 2.8k • updated 4 weeks ago by al.bodrug • 50
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bcftools mpileup --max depth : What would be a reasonable setting for this option?
consensus bcftools mpileup written 5 weeks ago by Cookie-san • 0
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1
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117
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1
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Samtools mpileup - Sudden decrease of coverage at homopolymer regions
samtools mapping mpileup written 8 weeks ago by Louis Kok • 10 • updated 8 weeks ago by Kevin Blighe ♦ 43k
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154
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Are both samtools mpileup options -m and -F only related to indel detection?
next-gen alignment samtools mpileup snp written 3 months ago by serpalma.v • 20
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182
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From mpileup on bam files to TMB calculation, how is it done?
snps bam mutations mpileup tmb written 3 months ago by Pin.Bioinf • 250
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286
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Multimapping reads intervention in SNP calling
alignment samtools snp mpileup written 6 months ago by sambioinfo2018 • 0 • updated 3 months ago by Biostar ♦♦ 20
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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 4.0 years ago by bobrowdy123 • 0 • updated 4 months ago by Biostar ♦♦ 20
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2
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Mpileup Segmentation Fault
mpileup written 6.8 years ago by AW • 350 • updated 4 months ago by Biostar ♦♦ 20
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361
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SNP calling using samtools
rnaseq samtools bcftools snp mpileup written 5 months ago by ankit hinsu • 10 • updated 4 months ago by Biostar ♦♦ 20
2
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0
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311
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getting the HOM_REF genotypes using bcftools mpileup+call ?
bcftools variant call mpileup genotype written 4 months ago by Pierre Lindenbaum ♦ 120k • updated 4 months ago by RamRS ♦ 21k
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Variant Calling (Samtools Mpileup): Error
variant calling samtools bcftools mpileup written 5 months ago by venuraherath • 20
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677
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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 months ago by DNAngel • 30
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1
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507
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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 months ago by RobertUt • 10
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1
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274
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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 6 months ago by serpalma.v • 20
2
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1
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281
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1
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I16 Info Tag
bcftools snp mpileup sequencing written 6 months ago by tbb21 • 10 • updated 6 months ago by finswimmer ♦ 11k
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11k
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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 7.4 years ago by Deniz • 50 • updated 6 months ago by zx8754 ♦ 7.5k
2
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1
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636
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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 7 months ago by M.O.L.S • 10
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455
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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 7 months ago by claudiadast • 0
2
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1
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267
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1
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How to read my Samtools mpileup?
samtools student mpileup written 8 months ago by c.clarido • 50 • updated 8 months ago by finswimmer ♦ 11k
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1
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350
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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 8 months ago by cetin.m • 30 • updated 8 months ago by Santosh Anand ♦ 4.8k
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bcftools mpileup output format
bcftools mpileup written 9 months ago by tarek.mohamed • 250
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353
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How to add sequence information to vcf from MPileup
vcf bam snp mpileup rna-seq written 9 months ago by helge.fluess • 0
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1
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1
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Bcftools view options for SNPs calling.
bcftools samtools snp mpileup written 3.9 years ago by Eddie_I • 30 • updated 10 months ago by Kevin Blighe ♦ 43k
2
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1
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279
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1
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Order of samtools mpileup - arbitrary or not?
samtools mpileup written 10 months ago by blur • 110 • updated 10 months ago by Devon Ryan ♦ 90k
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1
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515
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1
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Calculate average mapping quality at a position
mapping quality mpileup written 10 months ago by hpapoli • 70 • updated 10 months ago by Gabriel R. • 2.6k
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samtools mpileup `error uninitialized value $l in numeric lt` during BAM to FASTA conversion
fasta samtolls mpileup bam written 11 months ago by marongiu.luigi • 380
2
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1
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832
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7 follow
1
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Samtools mpileup degenerative characters
samtools degenrative characters mpileup written 23 months ago by bruseq • 40 • updated 11 months ago by swbarnes2 ♦ 5.8k
2
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1
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607
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1
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How to keep sample name while using samtools mpileup + varscan to do variant call?
varscan samtools mpileup written 11 months ago by MatthewP • 110 • updated 11 months ago by Pierre Lindenbaum ♦ 120k
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