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How to globally specify that shell sessions for all tasks must source (e.g.) $HOME/.profile ?
cromwell terra wdl docker
updated 2.1 years ago by • 0 • written 2.1 years ago by ▴ 70
5
votes
9
replies
2.5k
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Is there a way to merge VCF indices?
vcf
updated 2.1 years ago by 45k • written 3.2 years ago by ▴ 70
4
votes
3
replies
1.6k
views
How to implement this two-stage one-to-many workflow using WDL?
wdl
updated 2.5 years ago by • 0 • written 2.5 years ago by ▴ 70
0
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0
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2.0k
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Comment: Comment: What is the general structure of a WDL that implements "embarrassing paralleliza
2.6 years ago by kynnjo ▴ 70
0
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2
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2.0k
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Comment: Comment: What is the general structure of a WDL that implements "embarrassing paralleliza
2.6 years ago by kynnjo ▴ 70
3
votes
4
replies
2.0k
views
What is the general structure of a WDL that implements "embarrassing parallelization"?
wdl cromwell
updated 2.6 years ago by 5.1k • written 2.6 years ago by ▴ 70
2
votes
2
replies
1.4k
views
How to generate "dummy"/"fake" VCFs for testing software?
vcf
updated 2.6 years ago by 166k • written 2.6 years ago by ▴ 70
0
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0
replies
2.5k
views
Comment: Comment: Is there a way to merge VCF indices?
3.2 years ago by kynnjo ▴ 70
0
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1
reply
2.5k
views
Comment: Comment: Is there a way to merge VCF indices?
3.2 years ago by kynnjo ▴ 70
0
votes
1
reply
2.5k
views
Comment: Comment: Is there a way to merge VCF indices?
3.2 years ago by kynnjo ▴ 70
0
votes
1
reply
4.0k
views
Comment: Comment: How to merge 20K single-sample VCFs *without* using plink or plink2?
3.3 years ago by kynnjo ▴ 70
0
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1
reply
4.0k
views
Comment: Comment: How to merge 20K single-sample VCFs *without* using plink or plink2?
3.3 years ago by kynnjo ▴ 70
0
votes
1
reply
4.0k
views
Comment: Comment: How to merge 20K single-sample VCFs *without* using plink or plink2?
3.3 years ago by kynnjo ▴ 70
0
votes
1
reply
4.0k
views
Comment: Comment: How to merge 20K single-sample VCFs *without* using plink or plink2?
3.3 years ago by kynnjo ▴ 70
10
votes
13
replies
4.0k
views
How to merge 20K single-sample VCFs *without* using plink or plink2?
genotyping vcf
updated 3.3 years ago by 11k • written 3.3 years ago by ▴ 70
0
votes
1
reply
4.0k
views
Comment: Comment: How to merge 20K single-sample VCFs *without* using plink or plink2?
3.3 years ago by kynnjo ▴ 70
1
vote
1
reply
804
views
How to drop specific sites from VCFs?
vcf
updated 3.4 years ago by 154k • written 3.4 years ago by ▴ 70
0
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1
reply
1.4k
views
Comment: Comment: How to preserve alleles across plink operations?
3.5 years ago by kynnjo ▴ 70
0
votes
3
replies
1.4k
views
How to preserve alleles across plink operations?
vcf plink
updated 3.5 years ago by 11k • written 3.5 years ago by ▴ 70
0
votes
0
replies
958
views
On the conventions for annotating the position of insertion and deletion variants
genotyping indels genomics genome variant
5.2 years ago by kynnjo ▴ 70
3
votes
0
replies
1.0k
views
Answer: A: How to extract ~2M short sequences based on coordinates from a 3G fasta file?
5.2 years ago by kynnjo ▴ 70
3
votes
1
reply
1.0k
views
How to extract ~2M short sequences based on coordinates from a 3G fasta file?
genome assembly sequence
5.2 years ago by kynnjo ▴ 70
0
votes
1
reply
2.7k
views
Comment: C: How to use plink to consolidate multiple single-sample vcf files?
5.5 years ago by kynnjo ▴ 70
5
votes
3
replies
2.7k
views
How to use plink to consolidate multiple single-sample vcf files?
genotyping vcf plink SNP
5.5 years ago by kynnjo ▴ 70
0
votes
1
reply
3.1k
views
Comment: C: Looking for documentation on the semantics of kgXref.geneSymbol column in UCSC's
updated 5.8 years ago by 45k • written 9.9 years ago by ▴ 70
1
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0
replies
3.4k
views
Answer: A: Accessing UCSC mysql DB: ERROR 1045 (28000): Access denied for user 'genome'
updated 5.8 years ago by 45k • written 9.9 years ago by ▴ 70
0
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1
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3.4k
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Comment: C: Accessing UCSC mysql DB: ERROR 1045 (28000): Access denied for user 'genome'
updated 5.8 years ago by 45k • written 9.9 years ago by ▴ 70
1
vote
1
reply
1.5k
views
How does plink compute n_geno ("number of potentially valid call(s)")?
genotyping plink
updated 6.2 years ago by 11k • written 6.2 years ago by ▴ 70
2
votes
1
reply
1.5k
views
Unix command-line alternatives to GenomeStudio's clustering?
genotyping clustering
6.8 years ago by kynnjo ▴ 70
6
votes
2
replies
1.5k
views
On conventions for human chromosome numbering in file names (1 vs 01, etc.)
genomics
updated 2.4 years ago by 45k • written 6.8 years ago by ▴ 70
2
votes
2
replies
1.7k
views
Where does Illumina make MEGA_Consortium_v2_15070954_A2.csv available?
illumina genotyping
6.9 years ago by kynnjo ▴ 70
1
vote
1
reply
1.7k
views
How to make small subset of large genotyping dataset with plink?
SNP snp
updated 6.9 years ago by ▴ 280 • written 6.9 years ago by ▴ 70
0
votes
0
replies
2.8k
views
Comment: C: How to get minor allele frequencies from Exac?
7.1 years ago by kynnjo ▴ 70
0
votes
1
reply
2.8k
views
Comment: C: How to get minor allele frequencies from Exac?
7.1 years ago by kynnjo ▴ 70
0
votes
1
reply
1.5k
views
What's the difference between the /rest/variant and /rest/variant/variant requests to the Exac API?
exac api snp variant
updated 7.1 years ago by 16k • written 7.1 years ago by ▴ 70
4
votes
4
replies
2.8k
views
How to get minor allele frequencies from Exac?
exac variants allele maf api
updated 7.1 years ago by 16k • written 7.1 years ago by ▴ 70
6
votes
4
replies
5.0k
views
How to get 1000 Genomes data in bulk?
next-gen 1000-genomes databases api
updated 7.1 years ago by 89k • written 7.1 years ago by ▴ 70
1
vote
1
reply
1.5k
views
Can FACSDiva be used without its GUI?
flow_cytometry
9.4 years ago by kynnjo ▴ 70
3
votes
3
replies
3.1k
views
Looking for documentation on the semantics of kgXref.geneSymbol column in UCSC's hg19
genome
updated 3.2 years ago by 45k • written 9.9 years ago by ▴ 70
4
votes
4
replies
3.4k
views
Accessing UCSC mysql DB: ERROR 1045 (28000): Access denied for user 'genome'
genome
updated 3.2 years ago by 45k • written 9.9 years ago by ▴ 70
5
votes
3
replies
3.9k
views
Looking for clean list of gene names for UCSC's HG19
gene genome
updated 3.2 years ago by 45k • written 9.9 years ago by ▴ 70
6
votes
2
replies
12k
views
R package for GSEA
R
updated 3.2 years ago by 45k • written 9.9 years ago by ▴ 70
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