ANGSD: Analysis of next generation Sequencing Data
Latest tar.gz version is (0.938/0.939 on github), see Change_log for changes, and download it here.
HWE and Inbreeding estimates: Difference between revisions
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Filipe G. Vieira has been extending the ANGSD feature set by | Filipe G. Vieira has been extending the ANGSD feature set by | ||
# A method for estimating inbreeding (deviation from Hardy-Weinberg) based on output from ANGSD. | # A method for estimating inbreeding (deviation from Hardy-Weinberg) based on output from ANGSD. | ||
# Some parts of the ANGSD code will work for inbreeding estimates version 0.572+. | # Some parts of the ANGSD code (site frequency-sample allele frequency) will work for inbreeding estimates version 0.572+. | ||
;NB If in doubt if a specific analysis will work please write. | |||
==HWE and Inbreeding estimates== | ==HWE and Inbreeding estimates== | ||
For method details see [[inbreed|here]] | For method details see [[inbreed|here]] | ||
And the most recent version of the stand alone program is here https://github.com/fgvieira/ngsF. | And the most recent version of the stand alone program is here https://github.com/fgvieira/ngsF. | ||
Revision as of 15:48, 6 January 2014
Filipe G. Vieira has been extending the ANGSD feature set by
- A method for estimating inbreeding (deviation from Hardy-Weinberg) based on output from ANGSD.
- Some parts of the ANGSD code (site frequency-sample allele frequency) will work for inbreeding estimates version 0.572+.
- NB If in doubt if a specific analysis will work please write.
HWE and Inbreeding estimates
For method details see here And the most recent version of the stand alone program is here https://github.com/fgvieira/ngsF.