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1
vote
0
replies
246
views
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
votes
1
reply
246
views
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
Juke34
7.9k • written 3.1 years ago by
William
★ 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
Juke34
7.9k • written 3 months ago by
William
★ 5.2k
0
votes
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
Emily
23k • written 4 months ago by
William
★ 5.2k
0
votes
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
votes
0
replies
598
views
Comment:
Comment: how to calculate %of missing genotype in vcf file
8 months ago by
William
★ 5.2k
0
votes
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
Ram
39k • written 8 months ago by
William
★ 5.2k
0
votes
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
chrchang523
10k • written 5.9 years ago by
William
★ 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
jena
▴ 250 • written 6.9 years ago by
William
★ 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
jena
▴ 250 • written 20 months ago by
William
★ 5.2k
0
votes
2
replies
938
views
Best (GATK compatible) RadSeq/GBS pipeline in 2021
radseq
gbs
gatk
updated 15 months ago by
rimgubaev
▴ 330 • written 2.3 years ago by
William
★ 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
P
▴ 10 • written 6.8 years ago by
William
★ 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
zx8754
11k • written 16 months ago by
William
★ 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
quentin54520
▴ 100 • written 2.1 years ago by
William
★ 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
vote
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
votes
0
replies
1.0k
views
Comment:
Comment: Merging VCF files.
20 months ago by
William
★ 5.2k
0
votes
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
Renesh
★ 2.1k • written 20 months ago by
William
★ 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
Ram
39k • written 9.6 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
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
4galaxy77
2.7k • written 2.4 years ago by
William
★ 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
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