Phylogen(etics|omics) / RADseq
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Technical University of Munich
- Freising, Germany
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vcf2phylip
vcf2phylip PublicConvert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
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sam2consensus
sam2consensus PublicGet the consensus sequences from SAM (and BAM) files, ignoring the reference
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paralog-finder
paralog-finder PublicDetects and blacklists paralog RAD loci analyzed in Stacks or ipyrad, based on the McKinney 2017 method (doi:10.1111/1755-0998.12613)
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fineRADstructure-tools
fineRADstructure-tools PublicTools for data conversion and results visualization for fineRADstructure (http://cichlid.gurdon.cam.ac.uk/fineRADstructure.html)
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