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6
votes
3
replies
723
views
Create 10,000bp windows for a SNP file and assign each SNP to its respective window
genome snp vcf
updated 7 months ago by 35k • written 7 months ago by ▴ 50
0
votes
0
replies
340
views
Gene names/ids on annotated protein files
bash Protein GFF annotation
updated 14 months ago by 141k • written 14 months ago by ▴ 50
1
vote
13
replies
1.8k
views
Ete3 build - ValueError: Error parsing Phyml result
ete3 ete3toolkit ete phyml
updated 10 months ago by 43k • written 18 months ago by ▴ 50
6
votes
3
replies
1.3k
views
How to add column name to each cell using bash?
bash linux awk
updated 18 months ago by 141k • written 18 months ago by ▴ 50
8
votes
3
replies
948
views
Problem adding file names to fasta headers in multiple directories using awk
fasta awk bash
updated 18 months ago by ★ 4.4k • written 18 months ago by ▴ 50
4
votes
4
replies
1.0k
views
Retaining parts of the header file in multiple fasta files.
gnu awk fasta
updated 11 months ago by 4.2k • written 20 months ago by ▴ 50
1
vote
1
reply
2.1k
views
Different estimates of nucleotide diversity (pi) from two pipelines: pixy vs vcftools
vcftools nucleotide diversity pixy
updated 20 months ago by • 0 • written 3.3 years ago by ▴ 50
4
votes
4
replies
793
views
Annotation of multiple reference genomes
reference phylogenomics annotation
updated 2.0 years ago by 141k • written 2.0 years ago by ▴ 50
0
votes
0
replies
459
views
High positive values in vcftools --het results
wgs snpfilter vcftools gatk
2.5 years ago by nitinra ▴ 50
1
vote
1
reply
2.8k
views
Interpreting nucleotide diversity
nucleotide diversity π SNP
updated 3.2 years ago by 20 • written 3.2 years ago by ▴ 50
4
votes
4
replies
827
views
How to generate a tab limited genome co-odinate file from a reference - bedtools
genome SNP bedtools
3.3 years ago by nitinra ▴ 50
3
votes
3
replies
1.2k
views
How to setup a mac for genomic analysis
next-gen software installation
updated 3.3 years ago by 141k • written 3.3 years ago by ▴ 50
0
votes
0
replies
899
views
Determining breakpoint size in cnvnator-lumpy pipeline
lumpy cnvnator cnv sv
3.3 years ago by nitinra ▴ 50
0
votes
0
replies
1.2k
views
Pipeline for merging vcf files from lumpy and cnvnator and sv filtering
cnv sv wgs
3.3 years ago by nitinra ▴ 50
2
votes
1
reply
3.1k
views
Error while merging multiple vcf files using Picard MergeVcfs
snp genome picard gatk
updated 10 months ago by 43k • written 3.6 years ago by ▴ 50
2
votes
1
reply
945
views
How to distinguish selection vs population demography from Tajima's D test
SNP Tajima population genetics vcf
updated 3.5 years ago by 35k • written 3.5 years ago by ▴ 50
0
votes
0
replies
1.6k
views
Negative Fst values from VCFtools result
SNP genome vcftools fst
updated 9 months ago by 43k • written 3.6 years ago by ▴ 50
0
votes
4
replies
1.3k
views
Handing scafflold names for plink bed file
bed plink snp genome
updated 12 months ago by • 0 • written 3.6 years ago by ▴ 50
0
votes
2
replies
746
views
Bedtools merge messing chromosome start - end points
genome merge bedtools merge bedtools
updated 3.6 years ago by 14k • written 3.6 years ago by ▴ 50
8
votes
2
replies
1.9k
views
merging multiple vcfs by column in Picard
vcf SNP genome picard
updated 3.6 years ago by 161k • written 3.6 years ago by ▴ 50
3
votes
1
reply
1.4k
views
Plotting large file size of bedtools genomecov output
bedtools genomecov genome coverage depth
updated 3.6 years ago by 161k • written 3.6 years ago by ▴ 50
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