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1
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246
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Comment: Comment: Reduce poly-N regions longer than 200bp back to 200bp in a reference genome FAST
9 weeks ago by William ★ 5.2k
0
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1
reply
246
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Comment: Comment: Reduce poly-N regions longer than 200bp back to 200bp in a reference genome FAST
9 weeks ago by William ★ 5.2k
3
votes
3
replies
246
views
Reduce poly-N regions longer than 200bp back to 200bp in a reference genome FASTA
FASTA poly-N
9 weeks ago by William ★ 5.2k
4
votes
11
replies
2.9k
views
Sort gff3 on chromosome, position and then featuretype (gene, mRNA, exon, CDS)
gff3
updated 3 months ago by 7.9k • written 3.1 years ago by ★ 5.2k
5
votes
2
replies
519
views
How to merge unique/non overlapping genes between 2 gene model GFF3 files?
gff3
updated 3 months ago by 7.9k • written 3 months ago by ★ 5.2k
0
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1
reply
518
views
Comment: Comment: How to convert VCF (with possible predicted gene effects) to protein fasta/MSA
4 months ago by William ★ 5.2k
1
vote
3
replies
518
views
How to convert VCF (with possible predicted gene effects) to protein fasta/MSA
gff3 fasta protein VCF
updated 4 months ago by 23k • written 4 months ago by ★ 5.2k
0
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0
replies
427
views
Comment: Comment: How to estimate and visualize haplotype blocks on a phased VCF/BCF
4 months ago by William ★ 5.2k
0
votes
2
replies
427
views
How to estimate and visualize haplotype blocks on a phased VCF/BCF
haplotype vcf
4 months ago by William ★ 5.2k
0
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0
replies
598
views
Comment: Comment: how to calculate %of missing genotype in vcf file
8 months ago by William ★ 5.2k
0
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1
reply
356
views
Tool that can merge 2 VCF files while taking "representational ambiguity" of (multi-allelic) variants into account
vcf merge bcftools multi-allelic
updated 8 months ago by 39k • written 8 months ago by ★ 5.2k
0
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0
replies
216
views
How to call SVs between reference genomes and force those SVs to be genotyped in WGS samples?
SVs
10 months ago by William ★ 5.2k
9
votes
5
replies
5.5k
views
How to determine percentage missing genotypes in VCF/BCF?
vcf
updated 12 months ago by 10k • written 5.9 years ago by ★ 5.2k
24
votes
6
replies
8.4k
views
8 follow
Add contig lenght to VCF header in a robust way
vcf
updated 13 months ago by ▴ 250 • written 6.9 years ago by ★ 5.2k
6
votes
10
replies
1.6k
views
User friendly (visual&interactive) VCF/BCF mining tools (2021)
gui vcf
updated 6 months ago by ▴ 250 • written 20 months ago by ★ 5.2k
0
votes
2
replies
938
views
Best (GATK compatible) RadSeq/GBS pipeline in 2021
radseq gbs gatk
updated 15 months ago by ▴ 330 • written 2.3 years ago by ★ 5.2k
0
votes
1
reply
1.9k
views
How are features extracted and encoded from a genotype matrix / VCF file?
vcf statistics feature extraction
updated 15 months ago by ▴ 10 • written 6.8 years ago by ★ 5.2k
2
votes
1
reply
418
views
How does 23andme store and analyze SNP array data of 12M humans?
snparray 23andme
updated 16 months ago by 11k • written 16 months ago by ★ 5.2k
9
votes
11
replies
2.5k
views
6 follow
Forum: 2021: state and usage of compressed file standards better than BAM and FASTQ
bam compression fastq
updated 10 months ago by ▴ 100 • written 2.1 years ago by ★ 5.2k
0
votes
0
replies
322
views
Calculate genome regions to exclude for Structural Variant calling
SV
18 months ago by William ★ 5.2k
1
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0
replies
1.2k
views
Comment: Comment: Is it possible to construct a full genome from whole sequence VCF files containi
20 months ago by William ★ 5.2k
2
votes
1
reply
1.2k
views
Answer: Answer: Is it possible to construct a full genome from whole sequence VCF files containi
20 months ago by William ★ 5.2k
0
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0
replies
1.0k
views
Comment: Comment: Merging VCF files.
20 months ago by William ★ 5.2k
0
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1
reply
1.1k
views
Comment: Comment: Strange speed up in GATK LeftAlignIndels
20 months ago by William ★ 5.2k
0
votes
1
reply
1.1k
views
Answer: Answer: Strange speed up in GATK LeftAlignIndels
20 months ago by William ★ 5.2k
1
vote
1
reply
596
views
Filter criteria for variants based on GBS data
gbs filter
updated 20 months ago by ★ 2.1k • written 20 months ago by ★ 5.2k
1
vote
0
replies
3.0k
views
Answer: Answer: How to merge many huge gVCFs with high speed.
20 months ago by William ★ 5.2k
0
votes
0
replies
1.6k
views
Comment: Comment: User friendly (visual&interactive) VCF/BCF mining tools (2021)
20 months ago by William ★ 5.2k
0
votes
0
replies
1.6k
views
Comment: Comment: User friendly (visual&interactive) VCF/BCF mining tools (2021)
20 months ago by William ★ 5.2k
0
votes
1
reply
1.6k
views
Comment: Comment: User friendly (visual&interactive) VCF/BCF mining tools (2021)
20 months ago by William ★ 5.2k
0
votes
0
replies
2.4k
views
Comment: Comment: How to set variant FILTER in a VCF file based on overlap with regions in a BED
21 months ago by William ★ 5.2k
0
votes
0
replies
674
views
Comment: Comment: Wobbly average GC profile spanning entire read length; what the cause and is it
23 months ago by William ★ 5.2k
0
votes
2
replies
674
views
Wobbly average GC profile spanning entire R1 read length; what the cause and is it bad
fastq qc
23 months ago by William ★ 5.2k
0
votes
0
replies
853
views
Comment: Comment: Best pre and post alignment / variant calling QC tools for many WGS/RNA samples
23 months ago by William ★ 5.2k
3
votes
3
replies
853
views
Best pre and post alignment / variant calling QC tools for many WGS/RNA samples 2021
fastq vcf bam
23 months ago by William ★ 5.2k
43
votes
21
replies
30k
views
16 follow
Multi-Sample Vcf To Phylogenetic Tree.
vcf
updated 4 months ago by 39k • written 9.6 years ago by ★ 5.2k
0
votes
1
reply
2.5k
views
Comment: Comment: 2021: state and usuge of compressed file standards better than BAM and FASTQ
2.1 years ago by William ★ 5.2k
0
votes
1
reply
2.5k
views
Comment: Comment: 2021: state and usuge of compressed file standards better than BAM and FASTQ
2.1 years ago by William ★ 5.2k
0
votes
1
reply
2.5k
views
Comment: Comment: 2021: state and usuge of compressed file standards better than BAM and FASTQ
2.1 years ago by William ★ 5.2k
3
votes
4
replies
2.4k
views
How to set variant FILTER in a VCF file based on overlap with regions in a BED file
annotation bed vcf
21 months ago by William ★ 5.2k
1
vote
1
reply
2.4k
views
Answer: Answer: How to set variant FILTER in a VCF file based on overlap with regions in a BED
2.1 years ago by William ★ 5.2k
0
votes
1
reply
879
views
Convert GFF3 to splice junction BED file, for filtering variants multi-sample (RNA-seq) VCF
rna splice-junction vcf
2.1 years ago by William ★ 5.2k
0
votes
0
replies
879
views
Answer: Answer: Convert GFF3 to splice junction BED file, for filtering variants multi-sample (
2.1 years ago by William ★ 5.2k
0
votes
0
replies
938
views
Comment: C: Best (GATK compatible) RadSeq/GBS pipeline in 2021
2.2 years ago by William ★ 5.2k
0
votes
0
replies
1.5k
views
Comment: C: How to convert a VCF with genotypes and phasing info to list of haplotypes for R
2.4 years ago by William ★ 5.2k
1
vote
2
replies
1.5k
views
How to convert a VCF with genotypes and phasing info to list of haplotypes for ROI/SOI
vcf genotypes phasing haplotypes
updated 2.4 years ago by 2.7k • written 2.4 years ago by ★ 5.2k
1
vote
0
replies
2.0k
views
Comment: C: How to filter a gff3 file by gene IDs
2.4 years ago by William ★ 5.2k
0
votes
0
replies
2.0k
views
Comment: C: How to filter a gff3 file by gene IDs
2.4 years ago by William ★ 5.2k
0
votes
1
reply
2.0k
views
Comment: C: How to filter a gff3 file by gene IDs
2.4 years ago by William ★ 5.2k
2
votes
6
replies
2.0k
views
How to filter a gff3 file by gene IDs
gff3
2.4 years ago by William ★ 5.2k
374 results • Page 1 of 8
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