California Condor Genome 2021

Scripts used for analyses in "Genome-wide diversity in the California condor tracks its prehistoric abundance and decline" by Robinson et al. (2021).

See also:

California condor genome data and resources at Zenodo (https://doi.org/10.5281/zenodo.4680008)

Name		Name	Last commit message	Last commit date
Latest commit History 46 Commits
LICENSE.md		LICENSE.md
README.md		README.md
ROH.sh		ROH.sh
SlidingWindowHet.py		SlidingWindowHet.py
TRFdat_to_bed_with_period.py		TRFdat_to_bed_with_period.py
WindowHetCoords.py		WindowHetCoords.py
busco_aves.sh		busco_aves.sh
chr_length_het.R		chr_length_het.R
circos_condor_chicken.sh		circos_condor_chicken.sh
crossSpeciesLiftover.sh		crossSpeciesLiftover.sh
customFilterVCF.py		customFilterVCF.py
dxy.sh		dxy.sh
findRepeats_WM_TRF_RM.sh		findRepeats_WM_TRF_RM.sh
gc_cpg_recombinationrate.sh		gc_cpg_recombinationrate.sh
genome_assembly_stats.sh		genome_assembly_stats.sh
ismc_condor.sh		ismc_condor.sh
lift_TV_aligned_het_to_condor_coordinates.sh		lift_TV_aligned_het_to_condor_coordinates.sh
mashmap_condor_chicken.sh		mashmap_condor_chicken.sh
msmc_msmc2.sh		msmc_msmc2.sh
plot_het_wins_hist.R		plot_het_wins_hist.R
psmc.sh		psmc.sh
reads_to_variants_pipeline.sh		reads_to_variants_pipeline.sh

Provide feedback