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15
votes
21
replies
7.0k
views
Pysam is giving - ValueError: reference_id -1 out of range 0<=tid<65334. Any suggestions?
pysam sam bam reference_id
updated 7.3 years ago by 10k • written 8.9 years ago by ★ 1.6k
6
votes
4
replies
5.9k
views
How to update the INFO field of VCF after merging, subsetting?
vcf merge genome INFO vcftools
updated 7.3 years ago by ▴ 30 • written 7.3 years ago by ★ 1.6k
0
votes
1
reply
5.9k
views
Comment: C: How to update the INFO field of VCF after merging, subsetting?
updated 7.3 years ago by 45k • written 7.3 years ago by ★ 1.6k
1
vote
1
reply
2.2k
views
Udpate the FILTER field in VCF to PASS if the variants is represented as true in another set of VCF?
vcf PASS SNP
updated 7.4 years ago by 166k • written 7.4 years ago by ★ 1.6k
0
votes
2
replies
3.1k
views
Comment: C: looking for alignment in IGV
7.4 years ago by kirannbishwa01 ★ 1.6k
1
vote
1
reply
3.3k
views
Comment: C: How to name the genome in karyoploteR ?
7.4 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
6.1k
views
Comment: C: Some clarification on enrichment analyses and pathway analyses?
7.4 years ago by kirannbishwa01 ★ 1.6k
1
vote
0
replies
6.1k
views
Comment: C: Some clarification on enrichment analyses and pathway analyses?
7.5 years ago by kirannbishwa01 ★ 1.6k
20
votes
6
replies
6.1k
views
Some clarification on enrichment analyses and pathway analyses?
pathview R gene-enrichment RNA-Seq
updated 23 months ago by 45k • written 7.5 years ago by ★ 1.6k
4
votes
4
replies
3.3k
views
How to name the genome in karyoploteR ?
karyoploteR genome RNA-Seq software error
updated 7.5 years ago by ★ 3.4k • written 7.5 years ago by ★ 1.6k
0
votes
0
replies
14k
views
Comment: C: karyoploteR: uncircle your genomes
7.5 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
2.3k
views
Comment: C: detecting allele specific expression of a gene at a specific locus without havin
7.6 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
2.3k
views
Comment: C: detecting allele specific expression of a gene at a specific locus without havin
7.6 years ago by kirannbishwa01 ★ 1.6k
1
vote
1
reply
2.3k
views
Answer: A: detecting allele specific expression of a gene at a specific locus without havin
7.6 years ago by kirannbishwa01 ★ 1.6k
3
votes
0
replies
114k
views
Comment: C: How to plot coverage and depth statistics of a bam file
7.7 years ago by kirannbishwa01 ★ 1.6k
2
votes
0
replies
114k
views
Comment: C: How to plot coverage and depth statistics of a bam file
7.7 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
11k
views
Comment: C: How to force merge a VCF files, for different samples?
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
69k
views
Comment: C: RNA-seq: Explain STAR quantMode geneCounts values
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
1.7k
views
How to count the number of unique alignment in PE reads? How to account for unmapped mate?
bam count alignment genome
7.9 years ago by kirannbishwa01 ★ 1.6k
3
votes
1
reply
2.5k
views
Tutorial: Convert bam files to fastq in numbers as indicated in samtools flagstat stats.
samtools bam alignment fastq sequence
updated 23 months ago by 45k • written 7.9 years ago by ★ 1.6k
4
votes
0
replies
6.9k
views
Answer: A: Bam to fastq conversion is giving error?
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
6.9k
views
Comment: C: Bam to fastq conversion is giving error?
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
6.9k
views
Comment: C: Bam to fastq conversion is giving error?
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
6.9k
views
Comment: C: Bam to fastq conversion is giving error?
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
3.9k
views
Comment: C: How to do genome guided denovo assembly? If not, how to align the denovo assembl
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
3.9k
views
Comment: C: How to do genome guided denovo assembly? If not, how to align the denovo assembl
7.9 years ago by kirannbishwa01 ★ 1.6k
2
votes
15
replies
3.9k
views
How to do genome guided denovo assembly? If not, how to align the denovo assembled bam to a particular reference genome?
genome alignment Assembly allpathsLG paralogous
updated 7.9 years ago by 35k • written 7.9 years ago by ★ 1.6k
0
votes
1
reply
3.9k
views
Comment: C: How to do genome guided denovo assembly? If not, how to align the denovo assembl
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
3.9k
views
Comment: C: How to do genome guided denovo assembly? If not, how to align the denovo assembl
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
3.9k
views
Comment: C: How to do genome guided denovo assembly? If not, how to align the denovo assembl
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
3.9k
views
Comment: C: How to do genome guided denovo assembly? If not, how to align the denovo assembl
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
3.9k
views
Comment: C: How to do genome guided denovo assembly? If not, how to align the denovo assembl
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
3.9k
views
Comment: C: How to do genome guided denovo assembly? If not, how to align the denovo assembl
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
2.8k
views
Comment: C: How to select lines (filter) in vcf files that have same genotypes for all the s
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
2.8k
views
Comment: C: How to select lines (filter) in vcf files that have same genotypes for all the s
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
0
replies
2.7k
views
Comment: C: How to find the sites/lines in vcf that are fixed for alleles in two different p
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
2.8k
views
Comment: C: How to select lines (filter) in vcf files that have same genotypes for all the s
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
2.7k
views
Comment: C: How to find the sites/lines in vcf that are fixed for alleles in two different p
7.9 years ago by kirannbishwa01 ★ 1.6k
6
votes
6
replies
2.8k
views
How to select lines (filter) in vcf files that have same genotypes for all the samples?
vcf pyvcf genotype genome sequence
updated 7.9 years ago by 166k • written 7.9 years ago by ★ 1.6k
1
vote
6
replies
2.7k
views
How to find the sites/lines in vcf that are fixed for alleles in two different populations?
genome next-gen alleles vcf population genetics
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
2.7k
views
Comment: C: How to find the sites/lines in vcf that are fixed for alleles in two different p
7.9 years ago by kirannbishwa01 ★ 1.6k
6
votes
2
replies
4.6k
views
Tutorial: GATK method for filtering vcf lines using GT values at all or multisample level.
genome vcf genotype variant-filtration
updated 23 months ago by 45k • written 7.9 years ago by ★ 1.6k
4
votes
0
replies
4.6k
views
Answer: Answer: GATK method for filtering vcf lines using GT values at all or multisample level.
3.2 years ago by kirannbishwa01 ★ 1.6k
0
votes
2
replies
5.8k
views
Comment: C: How to write the variant (allele) information back into a vcf file?
7.9 years ago by kirannbishwa01 ★ 1.6k
1
vote
1
reply
5.8k
views
Comment: C: How to write the variant (allele) information back into a vcf file?
7.9 years ago by kirannbishwa01 ★ 1.6k
0
votes
1
reply
5.8k
views
Comment: C: How to write the variant (allele) information back into a vcf file?
7.9 years ago by kirannbishwa01 ★ 1.6k
5
votes
9
replies
5.8k
views
How to write the variant (allele) information back into a vcf file?
vcf SNP allele genome next-gen
updated 7.9 years ago by ★ 2.8k • written 8.0 years ago by ★ 1.6k
1
vote
0
replies
2.7k
views
How do I add/update the FORMAT field and it values in SAMPLE field?
software error vcf pyvcf python add_field
8.0 years ago by kirannbishwa01 ★ 1.6k
0
votes
2
replies
2.0k
views
How to select specific values (features and attributes) from gtf/gff file and convert it into table like data?
gtf gff features attributes
updated 8.0 years ago by 35k • written 8.0 years ago by ★ 1.6k
1
vote
0
replies
3.8k
views
Comment: C: How to call genotype bases for all the samples in a vcf using for-loop?
8.0 years ago by kirannbishwa01 ★ 1.6k
240 results • Page 2 of 5
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