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3
votes
2
replies
269
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How to merge unique/non overlapping genes between 2 gene model GFF3 files?
gff3
updated 1 day ago by 7.5k • written 1 day ago by ★ 5.1k
0
votes
1
reply
317
views
Comment: Comment: How to convert VCF (with possible predicted gene effects) to protein fasta/MSA
19 days ago by William ★ 5.1k
1
vote
3
replies
317
views
How to convert VCF (with possible predicted gene effects) to protein fasta/MSA
gff3 fasta protein VCF
updated 18 days ago by 23k • written 19 days ago by ★ 5.1k
0
votes
0
replies
301
views
Comment: Comment: How to estimate and visualize haplotype blocks on a phased VCF/BCF
19 days ago by William ★ 5.1k
0
votes
2
replies
301
views
How to estimate and visualize haplotype blocks on a phased VCF/BCF
haplotype vcf
19 days ago by William ★ 5.1k
0
votes
0
replies
365
views
Comment: Comment: how to calculate %of missing genotype in vcf file
4 months ago by William ★ 5.1k
0
votes
1
reply
276
views
Tool that can merge 2 VCF files while taking "representational ambiguity" of (multi-allelic) variants into account
vcf merge bcftools multi-allelic
updated 4 months ago by 37k • written 4 months ago by ★ 5.1k
0
votes
0
replies
180
views
How to call SVs between reference genomes and force those SVs to be genotyped in WGS samples?
SVs
6 months ago by William ★ 5.1k
9
votes
5
replies
5.1k
views
How to determine percentage missing genotypes in VCF/BCF?
vcf
updated 8 months ago by 9.9k • written 5.6 years ago by ★ 5.1k
24
votes
6
replies
7.8k
views
8 follow
Add contig lenght to VCF header in a robust way
vcf
updated 9 months ago by ▴ 240 • written 6.6 years ago by ★ 5.1k
6
votes
10
replies
1.3k
views
User friendly (visual&interactive) VCF/BCF mining tools (2021)
gui vcf
updated 10 weeks ago by ▴ 240 • written 16 months ago by ★ 5.1k
0
votes
2
replies
833
views
Best (GATK compatible) RadSeq/GBS pipeline in 2021
radseq gbs gatk
updated 11 months ago by ▴ 330 • written 23 months ago by ★ 5.1k
0
votes
1
reply
1.8k
views
How are features extracted and encoded from a genotype matrix / VCF file?
vcf statistics feature extraction
updated 12 months ago by ▴ 10 • written 6.5 years ago by ★ 5.1k
2
votes
1
reply
368
views
How does 23andme store and analyze SNP array data of 12M humans?
snparray 23andme
updated 12 months ago by 11k • written 12 months ago by ★ 5.1k
9
votes
11
replies
2.1k
views
6 follow
Forum: 2021: state and usage of compressed file standards better than BAM and FASTQ
bam compression fastq
updated 6 months ago by ▴ 90 • written 21 months ago by ★ 5.1k
0
votes
0
replies
275
views
Calculate genome regions to exclude for Structural Variant calling
SV
14 months ago by William ★ 5.1k
1
vote
0
replies
1.1k
views
Comment: Comment: Is it possible to construct a full genome from whole sequence VCF files containi
16 months ago by William ★ 5.1k
2
votes
1
reply
1.1k
views
Answer: Answer: Is it possible to construct a full genome from whole sequence VCF files containi
16 months ago by William ★ 5.1k
0
votes
0
replies
862
views
Comment: Comment: Merging VCF files.
16 months ago by William ★ 5.1k
0
votes
1
reply
956
views
Comment: Comment: Strange speed up in GATK LeftAlignIndels
16 months ago by William ★ 5.1k
0
votes
1
reply
956
views
Answer: Answer: Strange speed up in GATK LeftAlignIndels
16 months ago by William ★ 5.1k
1
vote
1
reply
522
views
Filter criteria for variants based on GBS data
gbs filter
updated 16 months ago by ★ 2.1k • written 16 months ago by ★ 5.1k
1
vote
0
replies
2.5k
views
Answer: Answer: How to merge many huge gVCFs with high speed.
16 months ago by William ★ 5.1k
0
votes
0
replies
1.3k
views
Comment: Comment: User friendly (visual&interactive) VCF/BCF mining tools (2021)
16 months ago by William ★ 5.1k
0
votes
0
replies
1.3k
views
Comment: Comment: User friendly (visual&interactive) VCF/BCF mining tools (2021)
16 months ago by William ★ 5.1k
0
votes
1
reply
1.3k
views
Comment: Comment: User friendly (visual&interactive) VCF/BCF mining tools (2021)
16 months ago by William ★ 5.1k
0
votes
0
replies
1.9k
views
Comment: Comment: How to set variant FILTER in a VCF file based on overlap with regions in a BED
18 months ago by William ★ 5.1k
0
votes
0
replies
625
views
Comment: Comment: Wobbly average GC profile spanning entire read length; what the cause and is it
19 months ago by William ★ 5.1k
0
votes
2
replies
625
views
Wobbly average GC profile spanning entire R1 read length; what the cause and is it bad
fastq qc
19 months ago by William ★ 5.1k
0
votes
0
replies
703
views
Comment: Comment: Best pre and post alignment / variant calling QC tools for many WGS/RNA samples
19 months ago by William ★ 5.1k
3
votes
3
replies
703
views
Best pre and post alignment / variant calling QC tools for many WGS/RNA samples 2021
fastq vcf bam
19 months ago by William ★ 5.1k
42
votes
21
replies
28k
views
16 follow
Multi-Sample Vcf To Phylogenetic Tree.
vcf
updated 16 days ago by 37k • written 9.3 years ago by ★ 5.1k
0
votes
1
reply
2.1k
views
Comment: Comment: 2021: state and usuge of compressed file standards better than BAM and FASTQ
21 months ago by William ★ 5.1k
0
votes
1
reply
2.1k
views
Comment: Comment: 2021: state and usuge of compressed file standards better than BAM and FASTQ
21 months ago by William ★ 5.1k
0
votes
1
reply
2.1k
views
Comment: Comment: 2021: state and usuge of compressed file standards better than BAM and FASTQ
21 months ago by William ★ 5.1k
3
votes
4
replies
1.9k
views
How to set variant FILTER in a VCF file based on overlap with regions in a BED file
annotation bed vcf
18 months ago by William ★ 5.1k
1
vote
1
reply
1.9k
views
Answer: Answer: How to set variant FILTER in a VCF file based on overlap with regions in a BED
22 months ago by William ★ 5.1k
0
votes
1
reply
779
views
Convert GFF3 to splice junction BED file, for filtering variants multi-sample (RNA-seq) VCF
rna splice-junction vcf
22 months ago by William ★ 5.1k
0
votes
0
replies
779
views
Answer: Answer: Convert GFF3 to splice junction BED file, for filtering variants multi-sample (
22 months ago by William ★ 5.1k
0
votes
0
replies
833
views
Comment: C: Best (GATK compatible) RadSeq/GBS pipeline in 2021
23 months ago by William ★ 5.1k
0
votes
0
replies
1.3k
views
Comment: C: How to convert a VCF with genotypes and phasing info to list of haplotypes for R
2.1 years ago by William ★ 5.1k
1
vote
2
replies
1.3k
views
How to convert a VCF with genotypes and phasing info to list of haplotypes for ROI/SOI
vcf genotypes phasing haplotypes
updated 2.1 years ago by 2.6k • written 2.1 years ago by ★ 5.1k
1
vote
0
replies
1.7k
views
Comment: C: How to filter a gff3 file by gene IDs
2.1 years ago by William ★ 5.1k
0
votes
0
replies
1.7k
views
Comment: C: How to filter a gff3 file by gene IDs
2.1 years ago by William ★ 5.1k
0
votes
1
reply
1.7k
views
Comment: C: How to filter a gff3 file by gene IDs
2.1 years ago by William ★ 5.1k
2
votes
6
replies
1.7k
views
How to filter a gff3 file by gene IDs
gff3
2.1 years ago by William ★ 5.1k
4
votes
2
replies
1.4k
views
How to "discover" read structure and barcodes given Illumina sequencing run directory
bcl illumina barcodes demultiplexing
updated 2.1 years ago by 125k • written 2.1 years ago by ★ 5.1k
1
vote
0
replies
1.4k
views
Answer: A: How to "discover" read structure and barcodes given Illumina sequencing run dire
2.1 years ago by William ★ 5.1k
0
votes
0
replies
566
views
Comment: C: Count all (non N) nucleotides within regions defined in BED file
2.2 years ago by William ★ 5.1k
0
votes
0
replies
9.1k
views
Answer: A: Counting base and nucleotide frequency of multifasta file
2.2 years ago by William ★ 5.1k
371 results • Page 1 of 8
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