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1. msg msg Public

   Forked from JaneliaSciComp/msg

   Multiplexed Shotgun Genotyping

   Python 1 4

2. PseudoreferencePipeline PseudoreferencePipeline Public

   Parallelized pipeline for alignment, variant calling, and generation of pseudoreference FASTAs from Illumina data (DNA- or RNAseq)

   Shell 2 3

3. DyakCladeGenomes DyakCladeGenomes Public

   Scripts used for processing and analyses of PacBio genomes (and popgen samples mapped to these references) from the Drosophila yakuba clade (D. santomea, D. teissieri, and D. yakuba)

   Perl 1

4. DyakInversions DyakInversions Public

   Scripts used for analyses of inversions in Drosophila yakuba

   C++

5. HumanPopGenScripts HumanPopGenScripts Public

   Scripts used for pre- and post-processing of various human population genomics analyses

   Awk 2

6. PIBv1_manuscript PIBv1_manuscript Public

   Processing and analysis pipelines for the manuscript titled "Long-term isolation and archaic introgression shape functional genetic variation in Near Oceania"

   Nextflow