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1
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3
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623
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Mapping Mutations, Protein Domains, Exon structure on a Protein Figure/Visualization with annoations
mutation protein domain structure
5 months ago by jon.klonowski ▴ 150
2
votes
3
replies
971
views
Sample Level Filtering During GATK Germline Short Variant Discovery
Genotyping genomics vcf GATK germline
13 months ago by jon.klonowski ▴ 150
4
votes
4
replies
755
views
Purpose of Seqinfo Circularity Attribute in GenomicRanges Objects
Seqinfo GenomeInfoDb Circularity GenomicRanges
updated 16 months ago by 11k • written 16 months ago by ▴ 150
4
votes
5
replies
1.9k
views
biomaRt: Timeout on getBM().
ensembl biomart
21 months ago by jon.klonowski ▴ 150
0
votes
0
replies
873
views
VEP verisoning and GRCh37 vs GRCh38. conda/mamba/anaconda
ensembl genomics VEP GRCh37 conda
24 months ago by jon.klonowski ▴ 150
3
votes
5
replies
1.4k
views
How to choose output when using a "By" function from a TxDb object; GenomicFeatures R
TxDb GenomicFeatures genomics R
2.2 years ago by jon.klonowski ▴ 150
0
votes
0
replies
462
views
How to check for the most recent EnsDb Hsapiens verison?
genomics ensembl ensdb ensembldb
2.3 years ago by jon.klonowski ▴ 150
2
votes
3
replies
947
views
Command line VEP "Amino_acid" Output Column Inturperation: AA / AA * AA
VEP ensembl genetics genomics annotation
2.3 years ago by jon.klonowski ▴ 150
1
vote
3
replies
946
views
how do you get an IN-FRAME deletion stop gain variant?
genomics annotation ensembl VEP genetics
2.4 years ago by jon.klonowski ▴ 150
0
votes
0
replies
642
views
What is a good Standardized Beta/standardized regression coefficient in a genetics study?
regression genetics genomics
updated 13 months ago by 43k • written 2.7 years ago by ▴ 150
0
votes
1
reply
1.2k
views
gnomAD AF = 0 vs gnomAD AF = NA (gnomad V2)
annontation rare genomics variant gnomad
3.0 years ago by jon.klonowski ▴ 150
0
votes
0
replies
722
views
UCSC parameters for converting between human genome builds
genomics bed ucsc genotyping
3.0 years ago by jon.klonowski ▴ 150
0
votes
0
replies
480
views
How important is aligning BAM files to the appropriate design file?
gatk sequencing genomics wes bam
3.1 years ago by jon.klonowski ▴ 150
0
votes
0
replies
460
views
Multiple Sequencing Platforms, One Interval File?
WES sequencing GATK
3.2 years ago by jon.klonowski ▴ 150
1
vote
1
reply
1.1k
views
Considerations when merging a gVCF with a VCF?
vcf bcftools gvcf gatk WES
updated 3.4 years ago by • 0 • written 3.4 years ago by ▴ 150
1
vote
4
replies
1.5k
views
plink2: no file/directory libgfortran, search has found libgfortran
plink genetics vcf sequencing WES
updated 3.4 years ago by ★ 27k • written 3.4 years ago by ▴ 150
0
votes
2
replies
741
views
Gene Location File - One Gene One Genomic Interval
genomics genome sequencing SNP burden
3.4 years ago by jon.klonowski ▴ 150
0
votes
2
replies
2.4k
views
gatk SelectVariants odd behavior
gatk selectvariants vcf filtering SNP
updated 4.4 years ago by • 0 • written 5.0 years ago by ▴ 150
8
votes
10
replies
3.4k
views
6 follow
Is Ingenuity Pathway Analysis still relevant for analyzing RNA-seq data?
IPA RNA-Seq NGS dataanalysis
updated 4.8 years ago by ▴ 350 • written 4.8 years ago by ▴ 150
3
votes
5
replies
2.2k
views
BCF Tools Filter on 1000Genomes Annotation
bcftools vcftools annotation filter
5.0 years ago by jon.klonowski ▴ 150
2
votes
5
replies
8.2k
views
grep command on VCF
vcf unix grep bcf
5.0 years ago by jon.klonowski ▴ 150
0
votes
1
reply
1.4k
views
BCFTools Query: Avoid grouping Alt Alleles
bcftools vcf 1000genomes annotation
5.0 years ago by jon.klonowski ▴ 150
2
votes
5
replies
4.7k
views
PLINK vcf to binary files error: Unused command line option: --vcf
plink vcf genomics
updated 5.0 years ago by 10k • written 5.0 years ago by ▴ 150
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