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531
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Comment: Comment: Identify and count gaps in sam/bam files
4 months ago by shpak.max ▴ 50
0
votes
4
replies
531
views
Identify and count gaps in sam/bam files
samtools
updated 4 months ago by ★ 1.6k • written 4 months ago by ▴ 50
0
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0
replies
355
views
Comment: Comment: Correcting a lack of gaps in bwa aln mapping of unpaired reads
5 months ago by shpak.max ▴ 50
0
votes
2
replies
355
views
Correcting a lack of gaps in bwa aln mapping of unpaired reads
bwa
4 months ago by shpak.max ▴ 50
0
votes
1
reply
399
views
Comment: Comment: Mismatch between number of reads in fastq and mapped reads
5 months ago by shpak.max ▴ 50
1
vote
3
replies
399
views
Mismatch between number of reads in fastq and mapped reads
samtools bam
updated 5 months ago by ▴ 580 • written 5 months ago by ▴ 50
0
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0
replies
443
views
Comment: Comment: Fewer sites in vcf than in reference genome despite Emit_All_Sites argument
6 months ago by shpak.max ▴ 50
0
votes
1
reply
443
views
Comment: Comment: Fewer sites in vcf than in reference genome despite Emit_All_Sites argument
6 months ago by shpak.max ▴ 50
0
votes
4
replies
443
views
Fewer sites in vcf than in reference genome despite Emit_All_Sites argument
GATK UnifiedGenotyper
6 months ago by shpak.max ▴ 50
0
votes
0
replies
503
views
Comment: Comment: Genotyping sites with N in reference genome
6 months ago by shpak.max ▴ 50
0
votes
0
replies
503
views
Comment: Comment: Genotyping sites with N in reference genome
6 months ago by shpak.max ▴ 50
1
vote
4
replies
503
views
Genotyping sites with N in reference genome
GATK UnifiedGenotyper
6 months ago by shpak.max ▴ 50
0
votes
1
reply
720
views
Comment: Comment: Best way to deal with overlapping read names in merged BAM files
7 months ago by shpak.max ▴ 50
0
votes
1
reply
720
views
Comment: Comment: Best way to deal with overlapping read names in merged BAM files
7 months ago by shpak.max ▴ 50
1
vote
5
replies
720
views
Best way to deal with overlapping read names in merged BAM files
picard MarkDuplicates
7 months ago by shpak.max ▴ 50
0
votes
1
reply
532
views
Comment: Comment: Multiple iterations of sorted bam output files with picard SortSam
7 months ago by shpak.max ▴ 50
0
votes
3
replies
532
views
Multiple iterations of sorted bam output files with picard SortSam
picard
updated 7 months ago by 147k • written 7 months ago by ▴ 50
0
votes
0
replies
916
views
Comment: Comment: java version compatible with GATK 3.2.2
8 months ago by shpak.max ▴ 50
0
votes
1
reply
916
views
Comment: Comment: java version compatible with GATK 3.2.2
8 months ago by shpak.max ▴ 50
0
votes
0
replies
916
views
Comment: Comment: java version compatible with GATK 3.2.2
8 months ago by shpak.max ▴ 50
0
votes
0
replies
916
views
Comment: Comment: java version compatible with GATK 3.2.2
8 months ago by shpak.max ▴ 50
1
vote
7
replies
916
views
java version compatible with GATK 3.2.2
GATK
8 months ago by shpak.max ▴ 50
0
votes
1
reply
472
views
Comment: Comment: Merging bam files from different runs
8 months ago by shpak.max ▴ 50
0
votes
1
reply
472
views
Comment: Comment: Merging bam files from different runs
8 months ago by shpak.max ▴ 50
1
vote
5
replies
472
views
Merging bam files from different runs
samtools bam
updated 8 months ago by 147k • written 8 months ago by ▴ 50
0
votes
5
replies
1.3k
views
Stampy make fails
Stampy
updated 10 months ago by • 0 • written 3.4 years ago by ▴ 50
0
votes
0
replies
962
views
Comment: Comment: Detecting heterozygous deletions in NGS sequence data
19 months ago by shpak.max ▴ 50
1
vote
3
replies
962
views
Detecting heterozygous deletions in NGS sequence data
fastq vcf GATK
19 months ago by shpak.max ▴ 50
0
votes
1
reply
1.2k
views
Comment: Comment: Read lengths greater than insert length
20 months ago by shpak.max ▴ 50
5
votes
3
replies
1.2k
views
Read lengths greater than insert length
NGS
updated 20 months ago by 147k • written 20 months ago by ▴ 50
0
votes
1
reply
1.0k
views
Comment: Comment: Identifying adapter sequence to trim for Illumina IIx data
2.2 years ago by shpak.max ▴ 50
0
votes
3
replies
1.0k
views
Identifying adapter sequence to trim for Illumina IIx data
trimmomatic
updated 2.2 years ago by 14k • written 2.2 years ago by ▴ 50
0
votes
0
replies
1.6k
views
Comment: Comment: How does one use rename in seqkit to change sequence labels
2.2 years ago by shpak.max ▴ 50
2
votes
3
replies
1.6k
views
How does one use rename in seqkit to change sequence labels
seqkit
2.2 years ago by shpak.max ▴ 50
0
votes
1
reply
1.9k
views
Comment: Comment: Treating forward and reverse reads independently in BWA
2.2 years ago by shpak.max ▴ 50
0
votes
1
reply
1.9k
views
Comment: Comment: Treating forward and reverse reads independently in BWA
2.2 years ago by shpak.max ▴ 50
0
votes
0
replies
1.9k
views
Comment: Comment: Treating forward and reverse reads independently in BWA
2.2 years ago by shpak.max ▴ 50
0
votes
2
replies
1.9k
views
Comment: Comment: Treating forward and reverse reads independently in BWA
2.2 years ago by shpak.max ▴ 50
1
vote
10
replies
1.9k
views
Treating forward and reverse reads independently in BWA
bwa
updated 2.2 years ago by 101k • written 2.2 years ago by ▴ 50
0
votes
0
replies
846
views
Comment: Comment: Sampling short reads from a library with long reads
2.2 years ago by shpak.max ▴ 50
0
votes
2
replies
846
views
Sampling short reads from a library with long reads
alignments bwa
2.2 years ago by shpak.max ▴ 50
0
votes
0
replies
1.6k
views
Comment: Comment: fastq-dump throws "connection failed" error
2.5 years ago by shpak.max ▴ 50
0
votes
2
replies
1.6k
views
fastq-dump throws "connection failed" error
SRA fastq fastq-dump
2.5 years ago by shpak.max ▴ 50
1
vote
0
replies
431
views
Identifying/filtering pairwise IBD regions in diploid genomes
IBD
2.8 years ago by shpak.max ▴ 50
0
votes
0
replies
2.7k
views
Comment: Comment: Using IndexFeatureFile to index vcf
3.0 years ago by shpak.max ▴ 50
2
votes
2
replies
2.7k
views
Using IndexFeatureFile to index vcf
GATK
3.0 years ago by shpak.max ▴ 50
0
votes
0
replies
1.0k
views
Comment: Comment: Comparing SNP coordinates from alignments to different reference genomes
3.1 years ago by shpak.max ▴ 50
0
votes
2
replies
1.0k
views
Comparing SNP coordinates from alignments to different reference genomes
Samtools
3.1 years ago by shpak.max ▴ 50
0
votes
0
replies
1.8k
views
Comment: Comment: SAM Validation Error with CleanSam (Aligment start must be <= reference seq len
3.1 years ago by shpak.max ▴ 50
0
votes
1
reply
1.8k
views
Comment: Comment: SAM Validation Error with CleanSam (Aligment start must be <= reference seq len
3.1 years ago by shpak.max ▴ 50
77 results • Page 1 of 2
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