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Comment: Comment: Wildcards in Snakemake
2.1 years ago by Begonia_pavonina ▴ 210
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Comment: Comment: Wildcards in Snakemake
2.1 years ago by Begonia_pavonina ▴ 210
0
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2
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2.4k
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Comment: Comment: Wildcards in Snakemake
2.1 years ago by Begonia_pavonina ▴ 210
5
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9
replies
2.4k
views
Wildcards in Snakemake
Python workflow Snakemake wrapper
updated 2.1 years ago by 23k • written 2.1 years ago by ▴ 210
1
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920
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Manage the wrappers in Snakemake
snakemake python
updated 2.1 years ago by 45k • written 2.1 years ago by ▴ 210
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0
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2.0k
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Comment: Comment: Snakemake alignment script
2.1 years ago by Begonia_pavonina ▴ 210
4
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5
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2.0k
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Snakemake alignment script
snakemake alignment
2.1 years ago by Begonia_pavonina ▴ 210
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2.0k
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Comment: Comment: Snakemake alignment script
2.1 years ago by Begonia_pavonina ▴ 210
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0
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2.0k
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Comment: Comment: Snakemake alignment script
2.1 years ago by Begonia_pavonina ▴ 210
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1
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2.8k
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Comment: Comment: The GATK "The given bam input has no sample names." error
2.2 years ago by Begonia_pavonina ▴ 210
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2
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2.8k
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Comment: Comment: The GATK "The given bam input has no sample names." error
2.2 years ago by Begonia_pavonina ▴ 210
3
votes
6
replies
2.8k
views
The GATK "The given bam input has no sample names." error
GATK BWA
updated 2.2 years ago by 154k • written 2.2 years ago by ▴ 210
0
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0
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2.6k
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Comment: Comment: From VCF to BEAGLE format with multiple chromosomes
2.5 years ago by Begonia_pavonina ▴ 210
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2.6k
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Comment: Comment: From VCF to BEAGLE format with multiple chromosomes
2.5 years ago by Begonia_pavonina ▴ 210
2
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1
reply
1.4k
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Calculate the kinship matrix from NGS data
PCangsd kinship BEAGLE ANGSD
updated 2.6 years ago by 11k • written 2.6 years ago by ▴ 210
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0
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1.4k
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How to get BEAGLE files from VCF with angsd?
angsd vcf populationgenetics beagle pcangsd
2.6 years ago by Begonia_pavonina ▴ 210
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1
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1.7k
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Comment: Comment: Using vcfR to group variants per annotations
2.7 years ago by Begonia_pavonina ▴ 210
3
votes
3
replies
1.7k
views
Using vcfR to group variants per annotations
vcf vcfR R
updated 2.7 years ago by ★ 3.1k • written 2.7 years ago by ▴ 210
1
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1
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2.5k
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Comment: Comment: Filter out overlapping deletions from a VCF file.
2.7 years ago by Begonia_pavonina ▴ 210
0
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1
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2.5k
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Comment: Comment: Filter out overlapping deletions from a VCF file.
2.7 years ago by Begonia_pavonina ▴ 210
4
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5
replies
2.5k
views
Filter out overlapping deletions from a VCF file.
vcf bcftools gvcf
updated 15 months ago by ▴ 210 • written 2.7 years ago by ▴ 210
1
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4
replies
2.6k
views
From VCF to BEAGLE format with multiple chromosomes
vcf vcftools beagle gvcf
2.5 years ago by Begonia_pavonina ▴ 210
0
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0
replies
685
views
Plot Phylogenetic tree with traits in Biopython
Biopython Phylo Python Phylogeny
3.0 years ago by Begonia_pavonina ▴ 210
1
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1
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1.9k
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Labels colors in Bio.Phylo
Bio.Phylo Python BioPython
updated 3.1 years ago by 3.5k • written 3.1 years ago by ▴ 210
1
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0
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3.9k
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Comment: Comment: Bootstraps values in iqtree
3.1 years ago by Begonia_pavonina ▴ 210
3
votes
2
replies
3.9k
views
Bootstraps values in iqtree
iqtree
3.1 years ago by Begonia_pavonina ▴ 210
5
votes
4
replies
3.8k
views
IQ-TREE stuck in selecting a substitution model with ModelFinder
substitution ModelFInder model IQ-TREE
updated 2.4 years ago by ▴ 940 • written 3.3 years ago by ▴ 210
0
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1
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3.8k
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Comment: Comment: IQ-TREE stuck in selecting a substitution model with ModelFinder
3.3 years ago by Begonia_pavonina ▴ 210
0
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3
replies
2.9k
views
Answer: Answer: GenotypeGVCF too many genotypes from pooled samples
3.4 years ago by Begonia_pavonina ▴ 210
0
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0
replies
11k
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Comment: Comment: Question about ROH analysis by Plink 1.9
3.4 years ago by Begonia_pavonina ▴ 210
0
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0
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6.2k
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Comment: Comment: Snakemake 'Unexpected keyword ref in rule definition'
3.8 years ago by Begonia_pavonina ▴ 210
0
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1
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6.2k
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Comment: Comment: Snakemake 'Unexpected keyword ref in rule definition'
3.8 years ago by Begonia_pavonina ▴ 210
0
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1
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6.2k
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Comment: Comment: Snakemake 'Unexpected keyword ref in rule definition'
3.8 years ago by Begonia_pavonina ▴ 210
0
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2
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6.2k
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Comment: Comment: Snakemake 'Unexpected keyword ref in rule definition'
3.8 years ago by Begonia_pavonina ▴ 210
7
votes
12
replies
6.2k
views
Snakemake 'Unexpected keyword ref in rule definition'
snakemake python
updated 3.8 years ago by 21k • written 3.8 years ago by ▴ 210
0
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1
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6.2k
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Answer: Answer: Snakemake 'Unexpected keyword ref in rule definition'
3.8 years ago by Begonia_pavonina ▴ 210
0
votes
0
replies
1.4k
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Comment: Comment: Multiple samples in PLINK
3.8 years ago by Begonia_pavonina ▴ 210
1
vote
2
replies
1.4k
views
Multiple samples in PLINK
gvcf plink roh variants
3.8 years ago by Begonia_pavonina ▴ 210
2
votes
0
replies
4.4k
views
Comment: Comment: gVCF files into Plink!
3.8 years ago by Begonia_pavonina ▴ 210
0
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0
replies
2.3k
views
Comment: Comment: Confused about PED and MAP file
3.8 years ago by Begonia_pavonina ▴ 210
1
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2
replies
2.3k
views
Confused about PED and MAP file
PED PLINK MAP detectRUNS
3.8 years ago by Begonia_pavonina ▴ 210
0
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0
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11k
views
Comment: Comment: Question about ROH analysis by Plink 1.9
3.9 years ago by Begonia_pavonina ▴ 210
0
votes
0
replies
676
views
Label groups with samples names in snpgdsDrawTree (SNPRelate package)
SNPRelate
4.0 years ago by Begonia_pavonina ▴ 210
0
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0
replies
2.9k
views
Comment: Comment: No header in VCF file
4.0 years ago by Begonia_pavonina ▴ 210
1
vote
2
replies
2.9k
views
No header in VCF file
VCF bcftools header
4.0 years ago by Begonia_pavonina ▴ 210
0
votes
0
replies
1.2k
views
Comment: Comment: Plotting chromosomes and target capture baits
4.2 years ago by Begonia_pavonina ▴ 210
1
vote
2
replies
1.2k
views
Plotting chromosomes and target capture baits
plotting target_capture Hyb-Seq R
4.2 years ago by Begonia_pavonina ▴ 210
0
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1
reply
3.0k
views
Missing read group in BAM files
BWA ValidateSamFile BAM GATK HybPiper
updated 4.2 years ago by 15k • written 4.2 years ago by ▴ 210
2
votes
1
reply
1.6k
views
Find and replace the RNAME field in BAM/SAM file
samtools bam loop sed sam
updated 4.5 years ago by 154k • written 4.5 years ago by ▴ 210
0
votes
0
replies
646
views
KeyError in the pipeline SECAPR
SECAPR Hyb-Seq locus_selection Python Key_error
4.5 years ago by Begonia_pavonina ▴ 210
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