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Comment: Comment: Wildcards in Snakemake
23 months ago by Begonia_pavonina ▴ 210
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2.2k
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Comment: Comment: Wildcards in Snakemake
23 months ago by Begonia_pavonina ▴ 210
0
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2
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2.2k
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Comment: Comment: Wildcards in Snakemake
23 months ago by Begonia_pavonina ▴ 210
5
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9
replies
2.2k
views
Wildcards in Snakemake
Python workflow Snakemake wrapper
updated 23 months ago by 23k • written 23 months ago by ▴ 210
1
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873
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Manage the wrappers in Snakemake
snakemake python
updated 24 months ago by 45k • written 24 months ago by ▴ 210
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0
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1.8k
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Comment: Comment: Snakemake alignment script
24 months ago by Begonia_pavonina ▴ 210
4
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5
replies
1.8k
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Snakemake alignment script
snakemake alignment
24 months ago by Begonia_pavonina ▴ 210
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1.8k
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Comment: Comment: Snakemake alignment script
2.0 years ago by Begonia_pavonina ▴ 210
0
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0
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1.8k
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Comment: Comment: Snakemake alignment script
2.0 years ago by Begonia_pavonina ▴ 210
0
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1
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2.6k
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Comment: Comment: The GATK "The given bam input has no sample names." error
2.1 years ago by Begonia_pavonina ▴ 210
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2
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2.6k
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Comment: Comment: The GATK "The given bam input has no sample names." error
2.1 years ago by Begonia_pavonina ▴ 210
3
votes
6
replies
2.6k
views
The GATK "The given bam input has no sample names." error
GATK BWA
updated 2.1 years ago by 154k • written 2.1 years ago by ▴ 210
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0
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2.5k
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Comment: Comment: From VCF to BEAGLE format with multiple chromosomes
2.4 years ago by Begonia_pavonina ▴ 210
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1
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2.5k
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Comment: Comment: From VCF to BEAGLE format with multiple chromosomes
2.4 years ago by Begonia_pavonina ▴ 210
2
votes
1
reply
1.3k
views
Calculate the kinship matrix from NGS data
PCangsd kinship BEAGLE ANGSD
updated 2.5 years ago by 11k • written 2.5 years ago by ▴ 210
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0
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1.3k
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How to get BEAGLE files from VCF with angsd?
angsd vcf populationgenetics beagle pcangsd
2.5 years ago by Begonia_pavonina ▴ 210
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1
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1.6k
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Comment: Comment: Using vcfR to group variants per annotations
2.6 years ago by Begonia_pavonina ▴ 210
3
votes
3
replies
1.6k
views
Using vcfR to group variants per annotations
vcf vcfR R
updated 2.6 years ago by ★ 3.1k • written 2.6 years ago by ▴ 210
1
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1
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2.4k
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Comment: Comment: Filter out overlapping deletions from a VCF file.
2.6 years ago by Begonia_pavonina ▴ 210
0
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1
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2.4k
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Comment: Comment: Filter out overlapping deletions from a VCF file.
2.6 years ago by Begonia_pavonina ▴ 210
4
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5
replies
2.4k
views
Filter out overlapping deletions from a VCF file.
vcf bcftools gvcf
updated 13 months ago by ▴ 210 • written 2.6 years ago by ▴ 210
1
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4
replies
2.5k
views
From VCF to BEAGLE format with multiple chromosomes
vcf vcftools beagle gvcf
2.4 years ago by Begonia_pavonina ▴ 210
0
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0
replies
651
views
Plot Phylogenetic tree with traits in Biopython
Biopython Phylo Python Phylogeny
2.9 years ago by Begonia_pavonina ▴ 210
1
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1
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1.8k
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Labels colors in Bio.Phylo
Bio.Phylo Python BioPython
updated 2.9 years ago by 3.4k • written 3.0 years ago by ▴ 210
1
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0
replies
3.5k
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Comment: Comment: Bootstraps values in iqtree
3.0 years ago by Begonia_pavonina ▴ 210
3
votes
2
replies
3.5k
views
Bootstraps values in iqtree
iqtree
3.0 years ago by Begonia_pavonina ▴ 210
5
votes
4
replies
3.5k
views
IQ-TREE stuck in selecting a substitution model with ModelFinder
substitution ModelFInder model IQ-TREE
updated 2.3 years ago by ▴ 940 • written 3.2 years ago by ▴ 210
0
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1
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3.5k
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Comment: Comment: IQ-TREE stuck in selecting a substitution model with ModelFinder
3.2 years ago by Begonia_pavonina ▴ 210
0
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3
replies
2.8k
views
Answer: Answer: GenotypeGVCF too many genotypes from pooled samples
3.3 years ago by Begonia_pavonina ▴ 210
0
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0
replies
10k
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Comment: Comment: Question about ROH analysis by Plink 1.9
3.3 years ago by Begonia_pavonina ▴ 210
0
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0
replies
6.0k
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Comment: Comment: Snakemake 'Unexpected keyword ref in rule definition'
3.6 years ago by Begonia_pavonina ▴ 210
0
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1
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6.0k
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Comment: Comment: Snakemake 'Unexpected keyword ref in rule definition'
3.6 years ago by Begonia_pavonina ▴ 210
0
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1
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6.0k
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Comment: Comment: Snakemake 'Unexpected keyword ref in rule definition'
3.6 years ago by Begonia_pavonina ▴ 210
0
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2
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6.0k
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Comment: Comment: Snakemake 'Unexpected keyword ref in rule definition'
3.6 years ago by Begonia_pavonina ▴ 210
7
votes
12
replies
6.0k
views
Snakemake 'Unexpected keyword ref in rule definition'
snakemake python
updated 3.6 years ago by 21k • written 3.6 years ago by ▴ 210
0
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1
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6.0k
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Answer: Answer: Snakemake 'Unexpected keyword ref in rule definition'
3.6 years ago by Begonia_pavonina ▴ 210
0
votes
0
replies
1.3k
views
Comment: Comment: Multiple samples in PLINK
3.7 years ago by Begonia_pavonina ▴ 210
1
vote
2
replies
1.3k
views
Multiple samples in PLINK
gvcf plink roh variants
3.7 years ago by Begonia_pavonina ▴ 210
2
votes
0
replies
4.4k
views
Comment: Comment: gVCF files into Plink!
3.7 years ago by Begonia_pavonina ▴ 210
0
votes
0
replies
2.2k
views
Comment: Comment: Confused about PED and MAP file
3.7 years ago by Begonia_pavonina ▴ 210
1
vote
2
replies
2.2k
views
Confused about PED and MAP file
PED PLINK MAP detectRUNS
3.7 years ago by Begonia_pavonina ▴ 210
0
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0
replies
10k
views
Comment: Comment: Question about ROH analysis by Plink 1.9
3.8 years ago by Begonia_pavonina ▴ 210
0
votes
0
replies
635
views
Label groups with samples names in snpgdsDrawTree (SNPRelate package)
SNPRelate
3.8 years ago by Begonia_pavonina ▴ 210
0
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0
replies
2.8k
views
Comment: Comment: No header in VCF file
3.9 years ago by Begonia_pavonina ▴ 210
1
vote
2
replies
2.8k
views
No header in VCF file
VCF bcftools header
3.9 years ago by Begonia_pavonina ▴ 210
0
votes
0
replies
1.1k
views
Comment: Comment: Plotting chromosomes and target capture baits
4.1 years ago by Begonia_pavonina ▴ 210
1
vote
2
replies
1.1k
views
Plotting chromosomes and target capture baits
plotting target_capture Hyb-Seq R
4.1 years ago by Begonia_pavonina ▴ 210
0
votes
1
reply
3.0k
views
Missing read group in BAM files
BWA ValidateSamFile BAM GATK HybPiper
updated 4.1 years ago by 15k • written 4.1 years ago by ▴ 210
2
votes
1
reply
1.5k
views
Find and replace the RNAME field in BAM/SAM file
samtools bam loop sed sam
updated 4.4 years ago by 154k • written 4.4 years ago by ▴ 210
0
votes
0
replies
621
views
KeyError in the pipeline SECAPR
SECAPR Hyb-Seq locus_selection Python Key_error
4.4 years ago by Begonia_pavonina ▴ 210
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