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questions
0
votes
0
replies
104
views
Reference panel of normals for ensembl named refgenome
Mutect2
5 days ago by
gernophil
▴ 80
0
votes
12
replies
686
views
BWA MEM different synthax on linux (bash) and macOS (zsh)
MEM
BWA
10 weeks ago by
gernophil
▴ 80
0
votes
0
replies
144
views
Tutorial for COSMIC? Any way to calculate VAF?
COSMIC
10 weeks ago by
gernophil
▴ 80
3
votes
3
replies
425
views
Would a string composed of `#CHROM`, `POS`, `REF` and `ALT` uniquely identify a variant?
VCF
updated 11 weeks ago by
LauferVA
4.2k • written 12 weeks ago by
gernophil
▴ 80
0
votes
4
replies
450
views
Packages don't update, but no error or warning is thrown
Bioconductor
3 months ago by
gernophil
▴ 80
2
votes
3
replies
426
views
VEP - select consequences version
VEP
updated 3 months ago by
GenoMax
142k • written 4 months ago by
gernophil
▴ 80
2
votes
5
replies
634
views
Is the USCS hg38.chromAlias.txt file availble in a sorted fashion?
chromnames
updated 4 months ago by
Ram
43k • written 4 months ago by
gernophil
▴ 80
1
vote
4
replies
492
views
keep read association with mpileup
mpileup
samtools
updated 4 months ago by
Ram
43k • written 5 months ago by
gernophil
▴ 80
3
votes
19
replies
1.3k
views
extract sequence from genome by region
fasta
updated 4 months ago by
Ram
43k • written 5 months ago by
gernophil
▴ 80
2
votes
3
replies
1.1k
views
Extracting exons using GenomicFeatures is different from manual extraction
R
GenomicFeatures
updated 6 months ago by
alejandrogzi
▴ 120 • written 10 months ago by
gernophil
▴ 80
1
vote
1
reply
615
views
CHOPCHOP command line
sgRNA
chopchop
updated 9 months ago by
GenoMax
142k • written 14 months ago by
gernophil
▴ 80
0
votes
8
replies
1.1k
views
Why did GENCODE change the main annotation file from Comprehensive to Basic
GENCODE
10 months ago by
gernophil
▴ 80
0
votes
1
reply
852
views
CIBERSORTx/fractions docker outputs only zeros if --absolute TRUE
docker
CIBERSORTx
10 months ago by
gernophil
▴ 80
1
vote
2
replies
545
views
Use DESeq (1) data with DESeq2 Package?
DESeq
DESeq2
11 months ago by
gernophil
▴ 80
0
votes
7
replies
1.4k
views
fasterq-dump outputs "Cannot use '--ngc' as ngc file."
snakemake
sra-tools
SRA
updated 11 months ago by
Ram
43k • written 12 months ago by
gernophil
▴ 80
1
vote
3
replies
737
views
biomaRt crashes R studio
biomaRt
updated 14 months ago by
Matthias Zepper
4.6k • written 15 months ago by
gernophil
▴ 80
10
votes
4
replies
1.3k
views
Difference between ENSEMBL releases
release
genome
ENSEMBL
updated 16 months ago by
Jean-Karim Heriche
27k • written 16 months ago by
gernophil
▴ 80
2
votes
5
replies
1.1k
views
Why multiple SYMBOLS, Consequences... for Variant Effect Predictor (VEP)
VEP
updated 7 weeks ago by
barslmn
★ 2.2k • written 17 months ago by
gernophil
▴ 80
3
votes
3
replies
753
views
Annotate VCF with Pathways (without performing GSEA)
pathway_analysis
VCF
17 months ago by
gernophil
▴ 80
1
vote
1
reply
498
views
Download SraRunTable via entrez-direct
SRA
RunTable
command
line
updated 18 months ago by
GenoMax
142k • written 18 months ago by
gernophil
▴ 80
1
vote
3
replies
900
views
bcftools merge doesn't recalculate AF
bcftools
updated 20 months ago by
4galaxy77
2.8k • written 20 months ago by
gernophil
▴ 80
0
votes
0
replies
451
views
Filtering and sorting of multiallelic sites
VCF
multiallelic
20 months ago by
gernophil
▴ 80
3
votes
1
reply
819
views
Better splitting of mutliallelic sites then bcftools norm --m-any
bcftools
updated 11 months ago by
Ram
43k • written 20 months ago by
gernophil
▴ 80
2
votes
6
replies
1.4k
views
Can't convert multiple SAMs from SRA to BAMs
samtools
sam-dump
SRA
updated 11 months ago by
Ram
43k • written 22 months ago by
gernophil
▴ 80
2
votes
7
replies
1.2k
views
headers missing in efetch results for SRA database
SRA
Entrez.Direct
efetch
updated 22 months ago by
PeterC_NCBI
▴ 410 • written 22 months ago by
gernophil
▴ 80
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