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0
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183
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VEP verisoning and GRCh37 vs GRCh38. conda/mamba/anaconda
ensembl genomics VEP GRCh37 conda
8 weeks ago by jon.klonowski ▴ 120
0
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0
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604
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Comment: Comment: Installing VEP in conda
8 weeks ago by jon.klonowski ▴ 120
3
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5
replies
773
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How to choose output when using a "By" function from a TxDb object; GenomicFeatures R
TxDb GenomicFeatures genomics R
5 months ago by jon.klonowski ▴ 120
2
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0
replies
773
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Answer: Answer: How to choose output when using a "By" function from a TxDb object; GenomicFeatu
5 months ago by jon.klonowski ▴ 120
0
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1
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773
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Comment: Comment: How to choose output when using a "By" function from a TxDb object; GenomicFeatu
5 months ago by jon.klonowski ▴ 120
0
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0
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150
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How to check for the most recent EnsDb Hsapiens verison?
genomics ensembl ensdb ensembldb
5 months ago by jon.klonowski ▴ 120
0
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0
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337
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Comment: Comment: Command line VEP "Amino_acid" Output Column Inturperation: AA / AA * AA
5 months ago by jon.klonowski ▴ 120
2
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3
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337
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Command line VEP "Amino_acid" Output Column Inturperation: AA / AA * AA
VEP ensembl genetics genomics annotation
5 months ago by jon.klonowski ▴ 120
0
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0
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1.5k
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Comment: Comment: How do I split a genomicrange on chromosome and strand?
6 months ago by jon.klonowski ▴ 120
0
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0
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425
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Comment: Comment: how do you get an IN-FRAME deletion stop gain variant?
6 months ago by jon.klonowski ▴ 120
1
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3
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425
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how do you get an IN-FRAME deletion stop gain variant?
genomics annotation ensembl VEP genetics
6 months ago by jon.klonowski ▴ 120
1
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1
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425
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Answer: Answer: how do you get an IN-FRAME deletion stop gain variant?
6 months ago by jon.klonowski ▴ 120
0
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0
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327
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What is a good Standardized Beta/standardized regression coefficient in a genetics study?
regression size genomics effect genetics beta
10 months ago by jon.klonowski ▴ 120
0
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0
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9.2k
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Comment: Comment: Pararellization in GATK 4
12 months ago by jon.klonowski ▴ 120
0
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1
reply
561
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gnomAD AF = 0 vs gnomAD AF = NA (gnomad V2)
annontation rare genomics variant gnomad
13 months ago by jon.klonowski ▴ 120
0
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0
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561
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Answer: Answer: gnomAD AF = 0 vs gnomAD AF = NA (gnomad V2)
13 months ago by jon.klonowski ▴ 120
1
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0
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623
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Answer: Answer: Merged Reference Panel using WES data
13 months ago by jon.klonowski ▴ 120
0
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0
replies
694
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Comment: Comment: gnomAD reports variants with "NA" allele count and allele frequency
13 months ago by jon.klonowski ▴ 120
0
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0
replies
415
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UCSC parameters for converting between human genome builds
genomics bed ucsc genotyping
14 months ago by jon.klonowski ▴ 120
0
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0
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273
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How important is aligning BAM files to the appropriate design file?
gatk sequencing genomics wes bam
15 months ago by jon.klonowski ▴ 120
0
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1
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3.8k
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Comment: C: Version history and design files for exome kits from Agilent, Roche(Nimblegen),
16 months ago by jon.klonowski ▴ 120
0
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1
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3.8k
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Comment: A: Version history and design files for exome kits from Agilent, Roche(Nimblegen),
16 months ago by jon.klonowski ▴ 120
0
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0
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274
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Multiple Sequencing Platforms, One Interval File?
WES sequencing GATK
16 months ago by jon.klonowski ▴ 120
1
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1
reply
585
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Considerations when merging a gVCF with a VCF?
vcf bcftools gvcf gatk WES
updated 18 months ago by • 0 • written 18 months ago by ▴ 120
0
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0
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818
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Comment: C: plink2: no file/directory libgfortran, search has found libgfortran
18 months ago by jon.klonowski ▴ 120
0
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0
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818
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Comment: C: plink2: no file/directory libgfortran, search has found libgfortran
18 months ago by jon.klonowski ▴ 120
0
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4
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818
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plink2: no file/directory libgfortran, search has found libgfortran
plink genetics vcf sequencing WES
updated 18 months ago by ★ 19k • written 18 months ago by ▴ 120
0
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1
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1.2k
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Comment: A: join vcf file with annotations file?
19 months ago by jon.klonowski ▴ 120
0
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2
replies
410
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Gene Location File - One Gene One Genomic Interval
genomics genome sequencing SNP burden
19 months ago by jon.klonowski ▴ 120
0
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0
replies
410
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Answer: A: Gene Location File - One Gene One Genomic Interval
19 months ago by jon.klonowski ▴ 120
0
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0
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3.4k
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Comment: C: Downloadable File With Gene Locations
19 months ago by jon.klonowski ▴ 120
0
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2
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2.0k
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gatk SelectVariants odd behavior
gatk selectvariants vcf filtering SNP
updated 2.6 years ago by • 0 • written 3.2 years ago by ▴ 120
8
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10
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2.3k
views
6 follow
Is Ingenuity Pathway Analysis still relevant for analyzing RNA-seq data?
IPA RNA-Seq NGS dataanalysis
updated 3.0 years ago by ▴ 280 • written 3.0 years ago by ▴ 120
1
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1
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1.6k
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Comment: C: BCF Tools Filter on 1000Genomes Annotation
updated 3.2 years ago by 15k • written 3.2 years ago by ▴ 120
0
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1
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1.6k
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Comment: C: BCF Tools Filter on 1000Genomes Annotation
updated 3.2 years ago by 15k • written 3.2 years ago by ▴ 120
0
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0
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1.0k
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Comment: C: BCFTools Query: Avoid grouping Alt Alleles
3.2 years ago by jon.klonowski ▴ 120
3
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5
replies
1.6k
views
BCF Tools Filter on 1000Genomes Annotation
bcftools vcftools annotation filter
3.2 years ago by jon.klonowski ▴ 120
2
votes
5
replies
5.7k
views
grep command on VCF
vcf unix grep bcf
3.2 years ago by jon.klonowski ▴ 120
1
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0
replies
5.7k
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Answer: A: grep command on VCF
3.2 years ago by jon.klonowski ▴ 120
0
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0
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5.7k
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Comment: C: grep command on VCF
3.2 years ago by jon.klonowski ▴ 120
0
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0
replies
1.6k
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Comment: C: BCF Tools Filter on 1000Genomes Annotation
3.2 years ago by jon.klonowski ▴ 120
0
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0
replies
5.7k
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Comment: C: grep command on VCF
3.2 years ago by jon.klonowski ▴ 120
0
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1
reply
1.0k
views
BCFTools Query: Avoid grouping Alt Alleles
bcftools vcf 1000genomes annotation
3.2 years ago by jon.klonowski ▴ 120
0
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0
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3.1k
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Comment: C: PLINK vcf to binary files error: Unused command line option: --vcf
3.2 years ago by jon.klonowski ▴ 120
0
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1
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3.1k
views
Comment: C: PLINK vcf to binary files error: Unused command line option: --vcf
3.2 years ago by jon.klonowski ▴ 120
0
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5
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3.1k
views
PLINK vcf to binary files error: Unused command line option: --vcf
plink vcf genomics
updated 3.2 years ago by 9.3k • written 3.2 years ago by ▴ 120
1
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0
replies
18k
views
Comment: C: Sort VCF File by Position?
3.2 years ago by jon.klonowski ▴ 120
47 results • Page 1 of 1
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