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0
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1
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3.6k
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Comment: C: Biology side of bioinformatics
9.2 years ago by kirannbishwa01 ★ 1.6k
0
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0
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19k
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Comment: C: How to select aligned reads below certain mapping Quality (from BWA)?
9.2 years ago by kirannbishwa01 ★ 1.6k
24
votes
0
replies
42k
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Answer: A: Bedtools Genomecoveragebed Usage : How To Create A Genome File?
9.2 years ago by kirannbishwa01 ★ 1.6k
2
votes
0
replies
19k
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Answer: A: How to select aligned reads below certain mapping Quality (from BWA)?
9.2 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
19k
views
Comment: C: How to select aligned reads below certain mapping Quality (from BWA)?
9.2 years ago by kirannbishwa01 ★ 1.6k
1
vote
3
replies
3.3k
views
Segmentation fault error while running extractPIRs from ShapeIT
ShapeIT segmentation fault error vcf bam
9.2 years ago by kirannbishwa01 ★ 1.6k
1
vote
0
replies
2.8k
views
Can Read Back Phased genotypes be used to extend the haplotype blocks with Beagle, Shapeit, FastPhase etc?
Beagle ShapeIt FastPhase ReadBackPhasing Haplotype
9.2 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
13k
views
Comment: A: How to add custom fields to the VCF files?
9.2 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
3.6k
views
Comment: C: Biology side of bioinformatics
9.2 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
13k
views
Comment: C: How to add custom fields to the VCF files?
9.2 years ago by kirannbishwa01 ★ 1.6k
1
vote
1
reply
3.6k
views
Answer: A: Biology side of bioinformatics
9.2 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
2.0k
views
Are the identified SNPs in the given plot paralogs or positive variants (alleles)?
alignment SNP paralogs alleles
updated 9.2 years ago by 20 • written 9.3 years ago by ★ 1.6k
0
votes
0
replies
4.9k
views
Comment: Comment: NGS mapper that supports IUPAC reference
updated 3.0 years ago by 45k • written 9.3 years ago by ★ 1.6k
1
vote
1
reply
14k
views
Comment: C: All the reads aligned using STAR have low mapping quality (0-3). What is happeni
9.3 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
14k
views
Comment: C: All the reads aligned using STAR have low mapping quality (0-3). What is happeni
9.3 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
14k
views
Comment: C: All the reads aligned using STAR have low mapping quality (0-3). What is happeni
9.3 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
14k
views
Comment: C: All the reads aligned using STAR have low mapping quality (0-3). What is happeni
9.3 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
14k
views
Comment: C: All the reads aligned using STAR have low mapping quality (0-3). What is happeni
9.3 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
14k
views
Comment: C: All the reads aligned using STAR have low mapping quality (0-3). What is happeni
9.3 years ago by kirannbishwa01 ★ 1.6k
4
votes
14
replies
14k
views
All the reads aligned using STAR have low mapping quality (0-3). What is happening?
mapping quality STAR BWA alignment
9.3 years ago by kirannbishwa01 ★ 1.6k
4
votes
3
replies
4.0k
views
How to identify the chromosome where the reads has the secondary (alternative alignments), after running bwa mem?
bwa mem sam bam alignment
updated 9.4 years ago by 15k • written 9.4 years ago by ★ 1.6k
0
votes
0
replies
2.8k
views
Comment: C: Allele specific expression (ASE) using TPM (transcripts per million) values
updated 9.4 years ago by 12k • written 9.4 years ago by ★ 1.6k
2
votes
2
replies
2.8k
views
Allele specific expression (ASE) using TPM (transcripts per million) values
transcripts per million RNAseq ASE
updated 9.4 years ago by ▴ 260 • written 9.4 years ago by ★ 1.6k
1
vote
2
replies
7.5k
views
Comment: C: Pysam is giving - ValueError: reference_id -1 out of range 0<=tid<65334. Any su
9.4 years ago by kirannbishwa01 ★ 1.6k
1
vote
1
reply
7.5k
views
Comment: C: Pysam is giving - ValueError: reference_id -1 out of range 0<=tid<65334. Any su
9.4 years ago by kirannbishwa01 ★ 1.6k
0
votes
2
replies
7.5k
views
Comment: C: Pysam is giving - ValueError: reference_id -1 out of range 0<=tid<65334. Any su
9.4 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
7.5k
views
Comment: C: Pysam is giving - ValueError: reference_id -1 out of range 0<=tid<65334. Any su
9.4 years ago by kirannbishwa01 ★ 1.6k
0
votes
2
replies
7.5k
views
Answer: A: Pysam is giving - ValueError: reference_id -1 out of range 0<=tid<65334. Any su
9.4 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
3.7k
views
Answer: A: Adapter trimming in basespace
9.5 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
18k
views
Comment: C: STAR genome index with and/or with out *.gtf annotation
9.5 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
2.0k
views
Using GEO datasets from NCBI for EHH (extended haplotype homozygosity) test
RNA-Seq ChIP-Seq sequence selection
updated 9.5 years ago by 20 • written 9.6 years ago by ★ 1.6k
0
votes
1
reply
3.5k
views
Comment: C: Haplotype phasing for non-human model organism
9.5 years ago by kirannbishwa01 ★ 1.6k
3
votes
3
replies
3.5k
views
Haplotype phasing for non-human model organism
phasing impute2 beagle shapeit haplotype
updated 3.5 years ago by • 0 • written 9.5 years ago by ★ 1.6k
0
votes
0
replies
5.5k
views
Comment: C: Which reference panel to use with Impute2
9.5 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
3.2k
views
Comment: C: VCF isnot compressed and indexed even after running bgzip and tabix,
9.5 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
3.2k
views
Comment: C: VCF isnot compressed and indexed even after running bgzip and tabix,
9.5 years ago by kirannbishwa01 ★ 1.6k
1
vote
4
replies
3.2k
views
VCF isnot compressed and indexed even after running bgzip and tabix,
vcf bgzip tabix compression
9.5 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
2.6k
views
Unable to parse vcf file to create alternate genome and transcriptome database (using g2gtools).
vcf parse g2gtools genome
9.5 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
14k
views
Comment: C: Why GATK and bcftools SNP calling different?
9.6 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
3.8k
views
Comment: C: Calculate AB (allele balance) using SnpEff/SnpSift
9.6 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
3.8k
views
Comment: C: Calculate AB (allele balance) using SnpEff/SnpSift
9.6 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
3.8k
views
Comment: A: Calculate AB (allele balance) using SnpEff/SnpSift
9.6 years ago by kirannbishwa01 ★ 1.6k
0
votes
6
replies
3.8k
views
Calculate AB (allele balance) using SnpEff/SnpSift
SNPeff SnpSift Allele balance SNP
9.6 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
4.8k
views
Comment: C: Extract heterozygous genotype (GT: 0/1 and 1/2) from the vcf file and calculate
9.6 years ago by kirannbishwa01 ★ 1.6k
1
vote
0
replies
14k
views
Answer: A: Why GATK and bcftools SNP calling different?
9.6 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
4.8k
views
Comment: C: Extract heterozygous genotype (GT: 0/1 and 1/2) from the vcf file and calculate
9.6 years ago by kirannbishwa01 ★ 1.6k
2
votes
6
replies
4.8k
views
Extract heterozygous genotype (GT: 0/1 and 1/2) from the vcf file and calculate allelebalance.
genotype vcf heterozygous allele balance SNP
9.6 years ago by kirannbishwa01 ★ 1.6k
2
votes
2
replies
14k
views
Answer: A: Why GATK and bcftools SNP calling different?
9.6 years ago by kirannbishwa01 ★ 1.6k
6
votes
1
reply
14k
views
Answer: A: Why GATK and bcftools SNP calling different?
9.6 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
4.8k
views
Comment: C: Extract heterozygous genotype (GT: 0/1 and 1/2) from the vcf file and calculate
9.6 years ago by kirannbishwa01 ★ 1.6k
240 results • Page 4 of 5
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