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Comment: Comment: Padding out a GVCF file with 1000G exomes to get gatk VariantRecalibrator workin
2.4 years ago by michael.flower.14 ▴ 180
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Comment: Comment: Padding out a GVCF file with 1000G exomes to get gatk VariantRecalibrator workin
2.4 years ago by michael.flower.14 ▴ 180
0
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4
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2.5k
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Failing to install VEP dependencies
yep cpanm DBI
2.4 years ago by michael.flower.14 ▴ 180
0
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1
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1.5k
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Comment: Comment: Padding out a GVCF file with 1000G exomes to get gatk VariantRecalibrator workin
2.4 years ago by michael.flower.14 ▴ 180
0
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6
replies
1.5k
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Padding out a GVCF file with 1000G exomes to get gatk VariantRecalibrator working with a small sample
variantrecalibrator gatk gvcf
2.4 years ago by michael.flower.14 ▴ 180
0
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0
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622
views
gatk VariantRecalibrator positional argument error
VariantRecalibrator gatk vcf
2.4 years ago by michael.flower.14 ▴ 180
1
vote
2
replies
676
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Using comm to make a list of files that haven't yet been processed
linux comm
updated 2.4 years ago by 161k • written 2.4 years ago by ▴ 180
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0
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1.6k
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Comment: Comment: Removing diff syntax from its output
2.4 years ago by michael.flower.14 ▴ 180
0
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1
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1.6k
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Comment: Comment: Removing diff syntax from its output
2.4 years ago by michael.flower.14 ▴ 180
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0
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6.8k
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Comment: Comment: Changing the default location for conda install
2.4 years ago by michael.flower.14 ▴ 180
0
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0
replies
573
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Making consensus sequence for each haplotype
bcftools consensus
2.4 years ago by michael.flower.14 ▴ 180
0
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1
reply
1.6k
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Comment: Comment: Removing diff syntax from its output
2.4 years ago by michael.flower.14 ▴ 180
0
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1
reply
6.8k
views
Comment: Comment: Changing the default location for conda install
2.4 years ago by michael.flower.14 ▴ 180
0
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1
reply
1.6k
views
Comment: Comment: Removing diff syntax from its output
2.4 years ago by michael.flower.14 ▴ 180
0
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1
reply
1.6k
views
Comment: Comment: Removing diff syntax from its output
2.4 years ago by michael.flower.14 ▴ 180
3
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9
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1.6k
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Removing diff syntax from its output
diff linux
2.4 years ago by michael.flower.14 ▴ 180
4
votes
4
replies
6.8k
views
Changing the default location for conda install
conda linux install
updated 2.4 years ago by 142k • written 2.4 years ago by ▴ 180
0
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0
replies
528
views
Consensus sequence for phased variant calls
gatk phasing bcftools consensus
2.4 years ago by michael.flower.14 ▴ 180
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0
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2.1k
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Comment: Comment: Using tabix to subset a region from a VCF file
2.4 years ago by michael.flower.14 ▴ 180
2
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3
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2.1k
views
Using tabix to subset a region from a VCF file
tabix conda vcf
2.4 years ago by michael.flower.14 ▴ 180
0
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0
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478
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SHAPEIT phased haps file does not contain my SNPs of interest
phasing SHAPEIT conda
2.4 years ago by michael.flower.14 ▴ 180
0
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0
replies
865
views
Convert SHAPEIT haps file to vcf
vcf shapeit conda
updated 9 months ago by 43k • written 2.4 years ago by ▴ 180
3
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3
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1.4k
views
SHAPEIT using VCF unphased genotype input
VCF SHAPEIT
2.4 years ago by michael.flower.14 ▴ 180
3
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0
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1.4k
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Answer: Answer: SHAPEIT using VCF unphased genotype input
2.4 years ago by michael.flower.14 ▴ 180
0
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0
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1.4k
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Comment: Comment: SHAPEIT using VCF unphased genotype input
2.4 years ago by michael.flower.14 ▴ 180
1
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0
replies
892
views
Comment: Comment: Running GATK HaplotypeCaller over just one chromosome of a whole genome bam file
2.5 years ago by michael.flower.14 ▴ 180
1
vote
1
reply
892
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Running GATK HaplotypeCaller over just one chromosome of a whole genome bam file
GATK conda HaplotypeCaller
2.5 years ago by michael.flower.14 ▴ 180
0
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0
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1.7k
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Comment: Comment: GATK HaplotypeCaller works without GVCF option, but errors with GVCF
2.5 years ago by michael.flower.14 ▴ 180
0
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1
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1.7k
views
Comment: Comment: GATK HaplotypeCaller works without GVCF option, but errors with GVCF
2.5 years ago by michael.flower.14 ▴ 180
0
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0
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1.1k
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Comment: Comment: PGT only available for some variants in GATK .vcf
2.5 years ago by michael.flower.14 ▴ 180
0
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1
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1.7k
views
Comment: Comment: GATK HaplotypeCaller works without GVCF option, but errors with GVCF
2.5 years ago by michael.flower.14 ▴ 180
0
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1
reply
1.7k
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Comment: Comment: GATK HaplotypeCaller works without GVCF option, but errors with GVCF
2.5 years ago by michael.flower.14 ▴ 180
0
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7
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1.7k
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GATK HaplotypeCaller works without GVCF option, but errors with GVCF
picard GATK conda
2.5 years ago by michael.flower.14 ▴ 180
1
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2
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1.1k
views
PGT only available for some variants in GATK .vcf
GATK conda
2.5 years ago by michael.flower.14 ▴ 180
2
votes
2
replies
1.5k
views
GATK Mutect2 errors during basic variant calling
GATK conda
2.5 years ago by michael.flower.14 ▴ 180
2
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0
replies
1.5k
views
Answer: Answer: GATK Mutect2 errors during basic variant calling
2.5 years ago by michael.flower.14 ▴ 180
0
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0
replies
6.7k
views
Comment: Comment: Using GATK in conda
2.5 years ago by michael.flower.14 ▴ 180
10
votes
3
replies
6.7k
views
Using GATK in conda
gatk conda
updated 21 months ago by • 0 • written 2.5 years ago by ▴ 180
0
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2
replies
1.0k
views
Importing WGCNA edge and node files into Cytoscape
WGCNA Cytoscape
updated 2.6 years ago by ▴ 280 • written 2.6 years ago by ▴ 180
1
vote
1
reply
661
views
Syntax error when running ScaleHD
repeats expansion illumina ScaleHD amplicon
updated 21 months ago by ▴ 50 • written 2.8 years ago by ▴ 180
0
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1
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3.0k
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Comment: Comment: Problems running gatk - gatk: command not found
2.8 years ago by michael.flower.14 ▴ 180
0
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3
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3.0k
views
Problems running gatk - gatk: command not found
vcf bam gatk
updated 2.8 years ago by ★ 1.2k • written 2.8 years ago by ▴ 180
0
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0
replies
2.4k
views
Comment: Comment: How to set a multiqc outpath
2.8 years ago by michael.flower.14 ▴ 180
2
votes
2
replies
2.4k
views
How to set a multiqc outpath
fastqc multiqc
2.8 years ago by michael.flower.14 ▴ 180
0
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1
reply
4.2k
views
Comment: Comment: bcftools command not found
2.8 years ago by michael.flower.14 ▴ 180
0
votes
4
replies
4.2k
views
bcftools command not found
samtools bcftools vcf bam
updated 2.8 years ago by 82k • written 2.8 years ago by ▴ 180
0
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0
replies
1.1k
views
Comment: Comment: How to extract consensus sequence for a genomic region from a bam file
3.1 years ago by michael.flower.14 ▴ 180
0
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1
reply
1.1k
views
Comment: Comment: How to extract consensus sequence for a genomic region from a bam file
3.1 years ago by michael.flower.14 ▴ 180
0
votes
3
replies
1.1k
views
How to extract consensus sequence for a genomic region from a bam file
samtools bam
3.1 years ago by michael.flower.14 ▴ 180
0
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1
reply
1.9k
views
Comment: C: Imputation from plink
4.4 years ago by michael.flower.14 ▴ 180
116 results • Page 2 of 3
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