This shows you the differences between two versions of the page.
bioinformatics:scripts:popgen [2014/07/01 17:40] 127.0.0.1 external edit |
bioinformatics:scripts:popgen [2015/10/15 22:37] |
||
---|---|---|---|
Line 1: | Line 1: | ||
- | ===== Population Genomics ===== | ||
- | |||
- | |||
- | ==== DetectSynandNonSyn==== | ||
- | {{:bioinformatics:scripts:DetectSynandNonSyn.pl.zip}}\\ | ||
- | **Author:** Ann Gregory\\ | ||
- | **Last Revision:** Apr 2014\\ | ||
- | **Description:** From an alignment, this script will identify the total number of synonymous and nonsynonymous polymorphisms. | ||
- | |||
- | |||
- | ==== MKselection ==== | ||
- | {{:bioinformatics:scripts:MKselection.pl.zip}}\\ | ||
- | **Author:** Ann Gregory\\ | ||
- | **Last Revision:** Apr 2014\\ | ||
- | **Description:** Takes the input from detectsynandnonsyn.pl (above) and runs MK tests and determines if the gene is neutral, under positive selection or purifying selection. | ||
- | |||
- | |||
- | |||
- | ==== remove_introns ==== | ||
- | {{:bioinformatics:scripts:remove_introns.pl.zip}}\\ | ||
- | **Author:** Ann Gregory\\ | ||
- | **Last Revision:** Apr 2014\\ | ||
- | **Description:** Using a list of identified pairs of genes with potential introns, this script removes and concatenates the two gene ends into the singe gene. | ||
- | |||
- | ==== unique_fixed_polymorphisms ==== | ||
- | {{:bioinformatics:scripts:unique_fixed_polymorphisms.pl.zip}}\\ | ||
- | **Author:** Ann Gregory\\ | ||
- | **Last Revision:** Apr 2014\\ | ||
- | **Description:** Scans an alignment of population from two sites and looks for unique, fixed polymorphisms indicative of local adaptation. | ||
- | |||