phylip

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Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis

snps binary nexus vcf phylogenetics alignment fasta snapp phylip vcf-files polyploid haploid phylogenetic-analysis outgroup convert-snps vcf-format phylip-matrix diploid

Convert STACKS fasta to many genotype formats

File conversion scripts for DNA sequence data

converter vcf fasta dna-sequences sequence-alignment conversion-script loci phylip pyrad bgc fileconversion svdquartets bayesian-genomic-cline genomic-cline

Python script to generate .snp and .ind Eigenstrat files from a PHYLIP infile

snps rad population-genomics population-genetics admixture hybridization phylip pyrad admixtools eigenstrat ddrad introgression f-statistics d-statistic rad-sequencing ddrad-sequencing geno ind

API to read, write, and filter DNA sequence alignment files

Easy Manipulation of Multiple Sequence Alignments (Concatenation and Format Conversion)

nexus fasta sequence-alignments msa phylip

Python script to add population identifiers to STRUCTURE, PLINK, and PHYLIP files

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