Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Tutorials
Tools
Jobs
Forum
Planet
All »
Home
Log In
Showing selected topics • reset
or   Classic search
<prev • 225 results • page 1 of 8 • next >
1
vote
1
answer
60
views
1
answer
Why Does Mpileup Skip some variants ?
call mpileup variants written 1 day ago by sami • 0 • updated 1 day ago by RamRS ♦ 28k
3
votes
1
answer
45
views
1
answer
MAPQ mapping quality
snp mpileup call written 1 day ago by sami • 0
1
vote
1
answer
60
views
1
answer
mpileup error : Note: none of --samples-file, --ploidy or --ploidy-file given, assuming all sites are diploid
mpileup written 4 days ago by sami • 0
0
votes
0
answers
51
views
0
answers
difference between bcftools mpileup and bcftools call
bcftools variant call mpileup written 6 days ago by sami • 0
4
votes
0
answers
153
views
0
answers
SNPs and DEL/MNP in the same position. (DEL or SNP ??)
vcf indels calls snp mpileup written 8 days ago by sami • 0 • updated 8 days ago by RamRS ♦ 28k
3
votes
1
answer
78
views
1
answer
Why does samtools mpileup skip positions?
samtools mpileup written 9 days ago by m.wekking • 10 • updated 9 days ago by Istvan Albert ♦♦ 84k
0
votes
1
answer
114
views
1
answer
Error on pysam.bcftools.mpileup: "Segmentation fault (core dumped)"
bcftools samtools pysam mpileup written 15 days ago by sbstevenlee • 0
0
votes
0
answers
126
views
0
answers
samtools mpileup -l gives the wrong REF base for some positions
samtools mpileup written 9 weeks ago by oconnwald • 20
0
votes
1
answer
126
views
1
answer
Bcftools Mpileup bias for alternative alleles?
gatk bcftools mpileup snp written 12 weeks ago by cetin.m • 50 • updated 12 weeks ago by Kevin Blighe ♦ 63k
4
votes
0
answers
2.4k
views
0
answers
How can I input a BAM file to the samtools mpileup command without using a text file?
variant calling bam samtools mpileup written 3.4 years ago by cristian • 240 • updated 12 weeks ago by Biostar ♦♦ 20
3
votes
3
answers
4.7k
views
5 follow
3
answers
Per Sample Mpileup Output From Merged Bam File
samtools mpileup written 6.7 years ago by thomasvangurp • 10 • updated 3 months ago by wkretzsch • 0
0
votes
0
answers
136
views
0
answers
samtools mpileup on mitochondrial bam results in incorrect base quality scores
mitochondria samtools mpileup base-quality written 3 months ago by gmora • 30
0
votes
1
answer
224
views
1
answer
Generate VCF from different .bam files with different chromosome names
vcf bcftools mpileup written 4 months ago by ctdarwell • 0 • updated 4 months ago by Kevin Blighe ♦ 63k
7
votes
2
answers
6.3k
views
2
answers
samtools mpileup - how to extract the alternative allele counts for *each* alternative base
samtools alt mutation mpileup written 4.4 years ago by Michi • 950 • updated 5 months ago by Ks-seq • 10
5
votes
1
answer
184
views
1
answer
Exclamation mark in Samtools mpileup output
bam samtools mapping mpileup written 5 months ago by pr • 10 • updated 5 months ago by gb • 1.9k
1
vote
0
answers
132
views
0
answers
Convert VCF to mpileup/synchronized format
vcf popoolation tool synchronized format mpileup written 5 months ago by aniqaejaz220 • 30
7
votes
2
answers
617
views
2
answers
How to parallelize bcftools mpileup with GNU parallel?
parallel bcftools mpileup written 6 months ago by beausoleilmo • 320
7
votes
1
answer
488
views
1
answer
What is the difference between mpileup samtools and bcftools?
variant calling bcftools samtools mpileup snp written 6 months ago by beausoleilmo • 320 • updated 6 months ago by jkbonfield • 400
0
votes
1
answer
233
views
1
answer
in bcftools mpileup output, the DP number is not equal to depth in I16 tag
i16 bcftools mpileup written 8 months ago by wm • 470 • updated 8 months ago by harold.smith.tarheel • 4.6k
0
votes
0
answers
206
views
0
answers
Shall I change bcftools mpileup max depth?
variant calliing bcftools sampling mpileup written 9 months ago by marongiu.luigi • 520
0
votes
0
answers
407
views
0
answers
bcftools mpileup with --region option output wrong consequence
bam bcftools mpileup snp written 9 months ago by SSK • 10
0
votes
1
answer
371
views
1
answer
How to reconstruct reads or bam file from pileup
alignment samtools mpileup bam written 10 months ago by SSK • 10 • updated 10 months ago by h.mon ♦ 30k
1
vote
1
answer
201
views
1
answer
.bam mpileup mapping quality
samtools mapq mpileup sanger fastq written 11 months ago by saar.armon • 0 • updated 10 months ago by jkbonfield • 400
1
vote
1
answer
249
views
1
answer
Consensus sequence from multiple BAM files on a single position
bam samtools mpileup written 10 months ago by Federico Giorgi • 610 • updated 10 months ago by jkbonfield • 400
7
votes
0
answers
556
views
0
answers
Command line explain
bcftools mpileup written 12 months ago by f1978hp • 30 • updated 12 months ago by finswimmer ♦ 13k
0
votes
0
answers
313
views
0
answers
Difference between mpileup and HaplotypeCaller -ERC BP_RESOLUTION
variant calling haplotypecaller mpileup written 12 months ago by CY • 510
4
votes
1
answer
342
views
1
answer
Samtools mplileup detects wrong INDEL positions
variant calling samtools count nuceotides mpileup written 12 months ago by vit.filippo • 40 • updated 12 months ago by finswimmer ♦ 13k
0
votes
1
answer
388
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 13 months ago by prernagoel04 • 0 • updated 13 months ago by H.Hasani • 920
0
votes
0
answers
754
views
0
answers
Samtools mpileup with 10x data
samtools mpileup written 14 months ago by lali1 • 0
3
votes
1
answer
290
views
1
answer
Unexpected characters at consensus fasta generated by mpileup
samtools consensussequence mpileup written 14 months ago by gokberk • 60
<prev • 225 results • page 1 of 8 • next >
Recent Votes
Recent Locations • All »
  • UCLA, 9 minutes ago
  • USA, 9 minutes ago
  • University of Maryland, 21 minutes ago
Recent Awards • All »
Recent Replies
Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 685 users visited in the last hour