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Katherine Silliman

Adding more Supplementary code

Feb 11, 2022

274e786 · Feb 11, 2022

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Folders and files

Name		Name	Last commit message	Last commit date
parent directory ..
All_pca_covMat.Robj		All_pca_covMat.Robj	files to plot PCA using covmat	Jan 25, 2022
All_pca_covMat.tsv		All_pca_covMat.tsv	files to plot PCA using covmat	Jan 25, 2022
HCSS_Afilt32m70_01.dist		HCSS_Afilt32m70_01.dist	Move all code so it works from repository	Oct 11, 2020
HCSS_Afilt32m70_01.dist_fastme_stat.txt		HCSS_Afilt32m70_01.dist_fastme_stat.txt	Move all code so it works from repository	Oct 11, 2020
HCSS_Afilt32m70_01.relatedness		HCSS_Afilt32m70_01.relatedness	Move all code so it works from repository	Oct 11, 2020
HCSS_Afilt32m70_01_BS-2kbflank-down.bed		HCSS_Afilt32m70_01_BS-2kbflank-down.bed	Added results of outlier analyses	Feb 1, 2022
HCSS_Afilt32m70_01_BS-2kbflank-up.bed		HCSS_Afilt32m70_01_BS-2kbflank-up.bed	Added results of outlier analyses	Feb 1, 2022
HCSS_Afilt32m70_01_BS-CDS.bed		HCSS_Afilt32m70_01_BS-CDS.bed	Added results of outlier analyses	Feb 1, 2022
HCSS_Afilt32m70_01_BS-TE.bed		HCSS_Afilt32m70_01_BS-TE.bed	Added results of outlier analyses	Feb 1, 2022
HCSS_Afilt32m70_01_BS-exon.bed		HCSS_Afilt32m70_01_BS-exon.bed	Added results of outlier analyses	Feb 1, 2022
HCSS_Afilt32m70_01_BS-gene.bed		HCSS_Afilt32m70_01_BS-gene.bed	Added results of outlier analyses	Feb 1, 2022
HCSS_Afilt32m70_01_BS-gene2kb.bed		HCSS_Afilt32m70_01_BS-gene2kb.bed	Added results of outlier analyses	Feb 1, 2022
HCSS_Afilt32m70_01_BS-mRNA.bed		HCSS_Afilt32m70_01_BS-mRNA.bed	Added results of outlier analyses	Feb 1, 2022
HCSS_Afilt32m70_01_BS-unknown.bed		HCSS_Afilt32m70_01_BS-unknown.bed	Added results of outlier analyses	Feb 1, 2022
HCSS_Afilt32m70_01_K2_run1.qopt		HCSS_Afilt32m70_01_K2_run1.qopt	added admixture output file	Feb 1, 2022
HCSS_Afilt32m70_01_admix.logfile		HCSS_Afilt32m70_01_admix.logfile	Move all code so it works from repository	Oct 11, 2020
HCSS_Afilt32m70_01_admix.logfile_formatted		HCSS_Afilt32m70_01_admix.logfile_formatted	Move all code so it works from repository	Oct 11, 2020
HCSS_Afilt32m70_01_mbd.dist		HCSS_Afilt32m70_01_mbd.dist	Move all code so it works from repository	Oct 11, 2020
HCSS_Afilt32m70_01_mbd.relatedness		HCSS_Afilt32m70_01_mbd.relatedness	Move all code so it works from repository	Oct 11, 2020
HCSS_Afilt32m70_01_mbd_rab.txt		HCSS_Afilt32m70_01_mbd_rab.txt	Move all code so it works from repository	Oct 11, 2020
HCSS_Afilt32m70_01_mbdinput.dist		HCSS_Afilt32m70_01_mbdinput.dist	Move all code so it works from repository	Oct 11, 2020
HCSS_Afilt32m70_01_pp90-BS-po10.sel		HCSS_Afilt32m70_01_pp90-BS-po10.sel	Ran Bayescan on the correctly filtered VCF	Oct 13, 2020
HCSS_Afilt32m70_01_pp90-BS-po10_AccRte.txt		HCSS_Afilt32m70_01_pp90-BS-po10_AccRte.txt	Ran Bayescan on the correctly filtered VCF	Oct 13, 2020
HCSS_Afilt32m70_01_pp90-BS-po10_Verif.txt		HCSS_Afilt32m70_01_pp90-BS-po10_Verif.txt	Ran Bayescan on the correctly filtered VCF	Oct 13, 2020
HCSS_Afilt32m70_01_pp90-BS-po10_fst.txt		HCSS_Afilt32m70_01_pp90-BS-po10_fst.txt	Ran Bayescan on the correctly filtered VCF	Oct 13, 2020
HCSS_Afilt32m70_01_pp90_BSouts.vcf		HCSS_Afilt32m70_01_pp90_BSouts.vcf	VCF file of 12 outlier SNPs	Oct 13, 2020
HCSS_Afilt32m70_01dist.tree		HCSS_Afilt32m70_01dist.tree	Move all code so it works from repository	Oct 11, 2020
HCSS_sfsm70_PerGeneFst.tab		HCSS_sfsm70_PerGeneFst.tab	update	May 3, 2021
HCSS_sfsm70_PerSiteFst.csv		HCSS_sfsm70_PerSiteFst.csv	update	May 3, 2021
PCA_covmat_all.png		PCA_covmat_all.png	Updated Figures code and added mQTL plotting	Jan 25, 2022
PerGeneFst.RData		PerGeneFst.RData	update	May 3, 2021
background_fst_genes2kb_uniprot.txt		background_fst_genes2kb_uniprot.txt	update	May 3, 2021
fst2kb_g03.tab		fst2kb_g03.tab	update	May 3, 2021
fst_g03_david.tab		fst_g03_david.tab	Adding more Supplementary code	Feb 11, 2022
fstg03_genes2kb_uniprot.txt		fstg03_genes2kb_uniprot.txt	update	May 3, 2021
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