Anoles Genome #874
Anoles Genome #874
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Looks good, thanks @Vcaudill. We will need some guess at the recombination rate I think.
Codecov Report
@@ Coverage Diff @@
## main #874 +/- ##
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- Coverage 99.40% 99.38% -0.02%
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Files 77 62 -15
Lines 2508 2450 -58
Branches 285 285
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- Hits 2493 2435 -58
Misses 7 7
Partials 8 8
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stdpopsim/catalog/AnoCar/species.py
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| # No recombination rate yet for this species. | ||
| # Author of BourgeoisEtAl is sending the recombination map | ||
| # Recombintation rate of 1e-8 |
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don't need this line - it's redundant with the next one
stdpopsim/catalog/AnoCar/species.py
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| "LGf": 1e-8, | ||
| "LGg": 1e-8, | ||
| "LGh": 1e-8, | ||
| "MT": 1e-8, |
stdpopsim/catalog/AnoCar/species.py
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| # they mature 8 to 9 months after they are born | ||
| # can live up to 8 years in captivity | ||
| population_size=5.34e6, | ||
| # estimated by using different recombination rates found in BourgeoisEtAl |
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this line is not relevant any more, right?
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LGTM! |
lizard genome with temp recmbo rate. Auther from Bourgeois et aal. sending the recombination map. Also fixed generation time (it is 2.5 because they take a year to reach maturity) Fixed recombination rate to the placeholder rate of 1cM/Mb. Did new population estimates, caculated from theta values made some edits to make the comments clearer and made the recombination rate fot MT 0
will need to update recombination rate
Added mutation rate, population size, and generation time