Human ancestral structure data from cobraa

This is an updated version for the data from our paper on human ancestral population structure. The previous upload has truncated marginal decoding files. Here, I upload the full decoding files from cobraa-path (each state is a tuple of time and path), from which the marginal path probabilities can be easily obtained (see below). I also upload the final inference files from cobraa, for panmictic (PSMC) inference and the best fitting structured inference. These files exist for all of the 26 populations in the 1000 Genomes Project (one sample per population). To get the marginal path probabilities, the script marginalise_fulldecoding.py can be used. Example usage (the file paths will have to be changed):Usagepython human_ancestral_structure_v2/marginalise_fulldecoding.py -chrom 20 -popsam GBR_HG00118 -outprefix /home/trevor/testingdelete250531 -decode_file human_ancestral_structure/decoding/GBR_HG00118/chr20.txt.gz Write all in a bash loop withfor chrom in {1..22}; do for popsam in GBR_HG00118 TSI_NA20752 IBS_HG01783 FIN_HG00266 CEU_NA12718 CHS_HG00443 KHV_HG02113 CHB_NA18530 CDX_HG02373 JPT_NA18939 BEB_HG03006 PJL_HG03234 GIH_NA20845 STU_HG03753 ITU_HG03977 PUR_HG01171 CLM_HG01250 PEL_HG02285 MXL_NA19648 ESN_HG03515 YRI_NA18488 MSL_HG03212 GWD_HG02568 ACB_HG01882 ASW_NA19625 LWK_NA19017; do echo popsam=${popsam}, chrom=${chrom}; python human_ancestral_structure_v2/marginalise_fulldecoding.py -chrom ${chrom} -popsam ${popsam} -outprefix /home/trevor/testingdelete250531 -decode_file human_ancestral_structure/decoding/${popsam}/chr${chrom}.txt.gz ; echo; done; done Please post questions on the GitHub https://github.com/trevorcousins/cobraa