25 research outputs found
IlluminaContaminants
List of possible Illumina adaptor contaminants used in read trimming
snp_table_deserticola
List of SNPs for H.deserticola. Column 1 refers to the reference sequence. Column 2 to the position were the SNP is located. Column 3 and after are the genotypes per individua
coverage_per_gene_individuals
Coverage (Number of reads aligned) per individuals and per gene
snp_table_anomalus
List of SNPs for H.anomalus. Column 1 refers to the reference sequence. Column 2 to the position were the SNP is located. Column 3 and after are the genotypes per individua
bol_exi_fst_map_dnds
Contains list of all polymorphic genes in H. exilis - H. bolanderi species pairs and dn, ds, dn/ds values
deb_pet_fst_map_dnds
Contains list of all polymorphic genes in H. debilis - H. petiolaris species pairs and dn, ds, dn/ds values
deb_pet_fst_map_cluster_nonoverlapping_windows
Contains list for H. debilis - H. petiolaris of all unique positions in the genetic map, linkage groups, associated fst valuse, and other various statistics (not used in this study, but part of the original script)
deb_pet_fst_map
Contains: all SNPs kept in the H. debilis - H. petiolaris comparison, name of reference gene, position of SNP in gene, genotypes of all individuals, Fst, Fit, Fis, name, linkage group, position in centimorgan, unique position on map, number of nucleotides in gene, boolean value whether SNP is in the top5% most divergent
unique_genes
Contains list of all unique polymorphic genes found in either of the three species pairs, and the fst value for all three species pairs
ann_arg_fst_map_dnds.out
Contains list of all polymorphic genes in H. annuus - H. argophyllus species pairs and dn, ds, dn/ds values