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0
votes
0
replies
1.4k
views
Comment:
Comment: From VCF to BEAGLE format with multiple chromosomes
11 months ago by
Begonia_pavonina
▴ 150
0
votes
1
reply
1.4k
views
Comment:
Comment: From VCF to BEAGLE format with multiple chromosomes
11 months ago by
Begonia_pavonina
▴ 150
2
votes
1
reply
754
views
Calculate the kinship matrix from NGS data
PCangsd
kinship
BEAGLE
ANGSD
updated 13 months ago by
chrchang523
10k • written 13 months ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
750
views
How to get BEAGLE files from VCF with angsd?
angsd
vcf
populationgenetics
beagle
pcangsd
13 months ago by
Begonia_pavonina
▴ 150
0
votes
1
reply
951
views
Comment:
Comment: Using vcfR to group variants per annotations
14 months ago by
Begonia_pavonina
▴ 150
3
votes
3
replies
951
views
Using vcfR to group variants per annotations
vcf
vcfR
R
updated 14 months ago by
dthorbur
★ 1.9k • written 14 months ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
1.2k
views
Comment:
Comment: Filter out overlapping deletions from a VCF file.
14 months ago by
Begonia_pavonina
▴ 150
0
votes
1
reply
1.2k
views
Comment:
Comment: Filter out overlapping deletions from a VCF file.
14 months ago by
Begonia_pavonina
▴ 150
1
vote
4
replies
1.2k
views
Filter out overlapping deletions from a VCF file.
vcf
bcftools
gvcf
14 months ago by
Begonia_pavonina
▴ 150
0
votes
4
replies
1.4k
views
From VCF to BEAGLE format with multiple chromosomes
vcf
vcftools
beagle
gvcf
11 months ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
397
views
Plot Phylogenetic tree with traits in Biopython
Biopython
Phylo
Python
Phylogeny
18 months ago by
Begonia_pavonina
▴ 150
1
vote
1
reply
1.1k
views
Labels colors in Bio.Phylo
Bio.Phylo
Python
BioPython
updated 18 months ago by
Arup Ghosh
3.2k • written 18 months ago by
Begonia_pavonina
▴ 150
1
vote
0
replies
1.1k
views
Comment:
Comment: Bootstraps values in iqtree
18 months ago by
Begonia_pavonina
▴ 150
3
votes
2
replies
1.1k
views
Bootstraps values in iqtree
iqtree
18 months ago by
Begonia_pavonina
▴ 150
5
votes
4
replies
1.7k
views
IQ-TREE stuck in selecting a substitution model with ModelFinder
substitution
ModelFInder
model
IQ-TREE
updated 11 months ago by
rohitsatyam102
▴ 850 • written 21 months ago by
Begonia_pavonina
▴ 150
0
votes
1
reply
1.7k
views
Comment:
Comment: IQ-TREE stuck in selecting a substitution model with ModelFinder
21 months ago by
Begonia_pavonina
▴ 150
0
votes
2
replies
1.5k
views
Answer:
Answer: GenotypeGVCF too many genotypes from pooled samples
22 months ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
7.7k
views
Comment:
Comment: Question about ROH analysis by Plink 1.9
22 months ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
4.3k
views
Comment:
Comment: Snakemake 'Unexpected keyword ref in rule definition'
2.2 years ago by
Begonia_pavonina
▴ 150
0
votes
1
reply
4.3k
views
Comment:
Comment: Snakemake 'Unexpected keyword ref in rule definition'
2.2 years ago by
Begonia_pavonina
▴ 150
0
votes
1
reply
4.3k
views
Comment:
Comment: Snakemake 'Unexpected keyword ref in rule definition'
2.2 years ago by
Begonia_pavonina
▴ 150
0
votes
2
replies
4.3k
views
Comment:
Comment: Snakemake 'Unexpected keyword ref in rule definition'
2.2 years ago by
Begonia_pavonina
▴ 150
7
votes
12
replies
4.3k
views
Snakemake 'Unexpected keyword ref in rule definition'
snakemake
python
updated 2.2 years ago by
cpad0112
21k • written 2.2 years ago by
Begonia_pavonina
▴ 150
0
votes
1
reply
4.3k
views
Answer:
Answer: Snakemake 'Unexpected keyword ref in rule definition'
2.2 years ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
799
views
Comment:
Comment: Multiple samples in PLINK
2.3 years ago by
Begonia_pavonina
▴ 150
1
vote
2
replies
799
views
Multiple samples in PLINK
gvcf
plink
roh
variants
2.3 years ago by
Begonia_pavonina
▴ 150
2
votes
0
replies
3.6k
views
Comment:
Comment: gVCF files into Plink!
2.3 years ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
1.3k
views
Comment:
Comment: Confused about PED and MAP file
2.3 years ago by
Begonia_pavonina
▴ 150
1
vote
2
replies
1.3k
views
Confused about PED and MAP file
PED
PLINK
MAP
detectRUNS
2.3 years ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
7.7k
views
Comment:
Comment: Question about ROH analysis by Plink 1.9
2.4 years ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
455
views
Label groups with samples names in snpgdsDrawTree (SNPRelate package)
SNPRelate
2.4 years ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
1.9k
views
Comment:
Comment: No header in VCF file
2.5 years ago by
Begonia_pavonina
▴ 150
1
vote
2
replies
1.9k
views
No header in VCF file
VCF
bcftools
header
2.5 years ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
744
views
Comment:
Comment: Plotting chromosomes and target capture baits
2.6 years ago by
Begonia_pavonina
▴ 150
1
vote
2
replies
744
views
Plotting chromosomes and target capture baits
plotting
target_capture
Hyb-Seq
R
2.6 years ago by
Begonia_pavonina
▴ 150
0
votes
1
reply
2.0k
views
Missing read group in BAM files
BWA
ValidateSamFile
BAM
GATK
HybPiper
updated 2.7 years ago by
swbarnes2
14k • written 2.7 years ago by
Begonia_pavonina
▴ 150
2
votes
1
reply
1.0k
views
Find and replace the RNAME field in BAM/SAM file
samtools
bam
loop
sed
sam
updated 3.0 years ago by
GenoMax
142k • written 3.0 years ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
438
views
KeyError in the pipeline SECAPR
SECAPR
Hyb-Seq
locus_selection
Python
Key_error
3.0 years ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
525
views
SECAPR issue
SECAPR
reads
trimmomatic
pipeline
alignement
3.1 years ago by
Begonia_pavonina
▴ 150
3
votes
8
replies
2.4k
views
blast2gff IndexError: list index out of range
blast2gff
GFF
BLAST
Python
blastn
updated 2.7 years ago by
alexaminar
• 0 • written 3.7 years ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
2.9k
views
Comment:
C: merging overlaping ranges with GenomicRanges
3.6 years ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
2.9k
views
Comment:
C: merging overlaping ranges with GenomicRanges
3.6 years ago by
Begonia_pavonina
▴ 150
5
votes
7
replies
1.2k
views
Replace FASTA file headers
fasta
FASTA
sed
loop
updated 3.6 years ago by
Joe
21k • written 3.6 years ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
1.7k
views
Comment:
C: Keep metadata gc column using GenomicRanges
3.6 years ago by
Begonia_pavonina
▴ 150
0
votes
1
reply
1.2k
views
Comment:
C: Replace FASTA file headers
3.6 years ago by
Begonia_pavonina
▴ 150
2
votes
2
replies
1.7k
views
Keep metadata gc column using GenomicRanges
ranges
Iranges
R
3.6 years ago by
Begonia_pavonina
▴ 150
4
votes
4
replies
2.9k
views
merging overlaping ranges with GenomicRanges
R
blast
GenomicRanges
range
updated 3.6 years ago by
Jeremy Leipzig
22k • written 3.6 years ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
700
views
Answer:
A: How to build my resource-bundle for variant recalibrator?
3.6 years ago by
Begonia_pavonina
▴ 150
3
votes
1
reply
2.1k
views
Length of scaffolds in a FASTA file
fasta
genome
bash
scaffold
updated 3.7 years ago by
cpad0112
21k • written 3.7 years ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
1.3k
views
Comment:
C: edit FASTA file according to range positions
3.7 years ago by
Begonia_pavonina
▴ 150
129 results • Page
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