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github.com/BioJulia/PopGen.jl

Population Genetics in Julia
https://github.com/BioJulia/PopGen.jl

add 1.9 to testing

2f748ccdd6e59595c58a7af78c4fd18e5d74d909 authored over 1 year ago by pdimens <[email protected]>
make pval atomic to avoid data race

a390532424a6f62ed78fc3df370e8bd93de5e5f0 authored over 1 year ago by pdimens <[email protected]>
Merge pull request #115 from BioJulia/compathelper/new_version/2023-05-02-01-25-58-494-00007201818

CompatHelper: bump compat for StatsBase to 0.34, (keep existing compat)

bcc6af2bf5e9e50fc912b8bbf8c46e6869594fe3 authored over 1 year ago by Pavel V. Dimens <[email protected]>
CompatHelper: bump compat for StatsBase to 0.34, (keep existing compat)

460c9110bcf201d1113abd01a9262136240d6b50 authored over 1 year ago by CompatHelper Julia <[email protected]>
fix progressbars

86c6154d2b9d06b063ea3bf2e5b99a4ea073ed0b authored over 1 year ago by pdimens <[email protected]>
add julia 1.8 to testing

b3825844fc4f7960590474af94684c65da3862c2 authored over 1 year ago by pdimens <[email protected]>
add printf

f7a194074fe90072522db18b2288bf41a1de8354 authored over 1 year ago by pdimens <[email protected]>
Merge branch 'amova' into dev

5319672f64bed82a7ab4d7e8ca8c8c2e178be24b authored over 1 year ago by Pavel V. Dimens <[email protected]>
fix dbscan breaking updates

1f713dbd9032126beb4078f9770425c535e266fb authored over 1 year ago by pdimens <[email protected]>
fix function

5b37336c3dedf9da8f1839a1356ad4118818b464 authored over 1 year ago by pdimens <[email protected]>
bump compat

04bfeed52676d8373374dfdec967fbf0e9e96006 authored over 1 year ago by pdimens <[email protected]>
fix string parse

7f8ca8a65138b025a404f773b83142c17b80c4de authored over 1 year ago by pdimens <[email protected]>
fix test

3f22622ebd402497c0b1d683221717ce9309d085 authored over 1 year ago by pdimens <[email protected]>
fix pairwise identical string handloing

c833b9e83598eae3d7d469a814e626baaa383786 authored over 1 year ago by pdimens <[email protected]>
Merge pull request #113 from BioJulia/net2dev

Update URLs from biojulia.net to biojulia.dev

8444c66248a7595235f2a431fad5ea5e348250b5 authored over 1 year ago by Pavel V. Dimens <[email protected]>
Update URLs from biojulia.net to biojulia.dev

51d95ee2adcf2985b4b9c4316b1ae56c1b7e3e54 authored over 1 year ago by Kevin Bonham <[email protected]>
Update README.md

f38e14e773f4f4764dc2f2070d1643a0ed27a72b authored almost 2 years ago by Pavel V. Dimens <[email protected]>
Update README.md

a25965a4d41a2ff0a2f2852aa79c73014c1d9ca6 authored almost 2 years ago by Pavel V. Dimens <[email protected]>
bump patch number

71cb53fae4bee5ff12ac49f1fad9055fe9923038 authored almost 2 years ago by Pavel V. Dimens <[email protected]>
fix term progress calls

0559bca53e0371ca98e6cbdad55e6750dac89d21 authored almost 2 years ago by Pavel V. Dimens <[email protected]>
fix compat for registrator

324038feb7ef47f88a57bac7cfdce4d96f367464 authored almost 2 years ago by Pavel V. Dimens <[email protected]>
update compat

ffd5a7d4590790ea3d6a411fb209e9a0384a2d40 authored almost 2 years ago by pdimens <[email protected]>
better indexing

4dfc5a87c17ef3ff1f80d6aa8a321488f72af2b0 authored almost 2 years ago by pdimens <[email protected]>
Update Project.toml

ac6c5f920277e47bdbd9ee75b7b19894993251d5 authored almost 2 years ago by Pavel V. Dimens <[email protected]>
Update PopGen.jl

2864419673ea2d5be81f9afad5169fdcbf734427 authored almost 2 years ago by Pavel V. Dimens <[email protected]>
Update Project.toml

638c8d47eb3399abc36470f2b480b22e3e99c92c authored almost 2 years ago by Pavel V. Dimens <[email protected]>
Update FstPermutations.jl

fix progressbar

13377946175bf1e8e56b08d183c01d1c5850725f authored almost 2 years ago by Pavel V. Dimens <[email protected]>
change pairwise FST api for dispatch

c99741eac529a0e4c02880844bcffca453b09f44 authored over 2 years ago by pdimens <[email protected]>
make pairwisefst method text consistent in print

e8252df4bc7c0402535e0b9a3560daaf76b05d79 authored over 2 years ago by pdimens <[email protected]>
prettier printing

e52042f87fc4862f150f2a924703bed22d487277 authored over 2 years ago by pdimens <[email protected]>
add initial AMOVA

3b2b9750e6728a94ea49d4f42867961bc0f17f35 authored over 2 years ago by pdimens <[email protected]>
add Printf import statement

88f4129c69b0bcaba9a70a66c86e56b231c9a0e2 authored over 2 years ago by pdimens <[email protected]>
add

897cc765b38c6686c5d86e0bac162d65eada6066 authored over 2 years ago by pdimens <[email protected]>
add AMOVA fst and make it default

a70a4214a459bac10acfadb831f80a96c7ae3969 authored over 2 years ago by pdimens <[email protected]>
fix progressbar

019265b8a43e6380aad5b85551722a8d2201e13d authored over 2 years ago by pdimens <[email protected]>
some fixes

1bd9ab4ecd348ab49a89e5ad0e1d66091ddd7fe2 authored over 2 years ago by pdimens <[email protected]>
update compat

5fd5bba17f2b1778474c03f77c293f9a08c3c3a2 authored over 2 years ago by pdimens <[email protected]>
Merge pull request #108 from BioJulia/compathelper/new_version/2022-08-07-02-12-29-900-03575162840

CompatHelper: bump compat for MultivariateStats to 0.10, (keep existing compat)

88ec014ae840c54258d8efcf13b256ddde31f2d4 authored over 2 years ago by Pavel V. Dimens <[email protected]>
CompatHelper: bump compat for MultivariateStats to 0.10, (keep existing compat)

0bd2f7eaf5a7f4690c111fa5a3c02f1d7dc78ee0 authored over 2 years ago by CompatHelper Julia <[email protected]>
interface changes

6ce957c9d79876e98a0978ad25fc81a484d894ba authored over 2 years ago by pdimens <[email protected]>
formatting change for missing filter

0da75eb78743fd32613d591e054e48cb9ead8509 authored over 2 years ago by pdimens <[email protected]>
Update README.md

18e981f054fab6b855a116cb2d09249a81996894 authored over 2 years ago by Pavel V. Dimens <[email protected]>
begin writing AMOVA

fb533246bd3fbfd2ab2f1d34fedc149dfb71e0db authored over 2 years ago by pdimens <[email protected]>
remove tsne

c35cadf30454a9ad783c14846c3206202f558dfc authored over 2 years ago by pdimens <[email protected]>
add percent column

07aa75e683cb12edf31b0ede6f50d7de1ebfe5eb authored over 2 years ago by pdimens <[email protected]>
start adding rf

a2beea79737ee994d69e60bd4581849feea8afa4 authored over 2 years ago by Pavel Dimens <[email protected]>
reexport plink

5bb24c93e02f7c10abf6e8eeef20b2ea8039e69e authored over 2 years ago by Pavel Dimens <[email protected]>
fix docstring

f4fdf0f2008a3d29e4b95778998e614b04fa66e1 authored over 2 years ago by Pavel Dimens <[email protected]>
replace kinship with new methods

9de533f42e46d8cf78aa71ad02136dc6ea596061 authored over 2 years ago by Pavel Dimens <[email protected]>
bump to next minor version

bb52f7a087bde10918361569530ec75235e1d649 authored over 2 years ago by Pavel Dimens <[email protected]>
bump to next minor version

c8514c8881c7868332d35db5912b59f58f9c6be3 authored over 2 years ago by Pavel Dimens <[email protected]>
update test

9ac6cd6ea789cad7e5a4db22de9744e05cbae1b0 authored over 2 years ago by Pavel Dimens <[email protected]>
dispatch on Val() methods

70eb159a5a7a810dab189b156b3fb6849d6be996 authored over 2 years ago by Pavel Dimens <[email protected]>
nicer dispatch

115dbf21c68028ef78c98abdf520b73d643466cb authored over 2 years ago by Pavel Dimens <[email protected]>
cleanup junk code from yaml

567dfd24f89740c6897ef058fc97e664d2847700 authored over 2 years ago by Pavel Dimens <[email protected]>
add back all testing deps

1c85f405ce4f702fe824d7675069cedcb8feac56 authored over 2 years ago by Pavel Dimens <[email protected]>
rm name and such

89e77938c435ec808ceaf8973f0cedae3825201b authored over 2 years ago by Pavel Dimens <[email protected]>
fix toml

aac551fd6088ae3100a3caed9bd1ed74a1f16807 authored over 2 years ago by Pavel Dimens <[email protected]>
hail mary

11bddd6239ef9c94ff443109fd8f0c2f6bb42226 authored over 2 years ago by Pavel Dimens <[email protected]>
add testing project.toml back

ecb9c5db22429c98e9bbde6bece75cef06b2f4e2 authored over 2 years ago by Pavel Dimens <[email protected]>
nother try

52020c36c128aa20205a59b9f4a2646d09c13d23 authored over 2 years ago by Pavel Dimens <[email protected]>
fix uuid

1b0ac329c6731800aaf7c96a30c3862a38bc7b3b authored over 2 years ago by Pavel Dimens <[email protected]>
set project folder

256a58ecbc72f62e49b5a400873a9e04adc85d35 authored over 2 years ago by Pavel Dimens <[email protected]>
fix shell call

1a7ba8482105733d9688b319e1b5b22966a4b47c authored over 2 years ago by Pavel Dimens <[email protected]>
try another method

9bbc3e6ff7c883c74a1a91de46dcd98af2077c01 authored over 2 years ago by Pavel Dimens <[email protected]>
clean up names

eea4a9308c8342c25bc88906d59f7497da196208 authored over 2 years ago by Pavel Dimens <[email protected]>
update workflows

76164a15197bd07a231ffc29d255c95b555802e6 authored over 2 years ago by Pavel Dimens <[email protected]>
remove testing project.toml

cb0955cded99835771d9bcdac0ebf8927f29e561 authored over 2 years ago by Pavel Dimens <[email protected]>
try again

5ed3f2b6e0a55af08381804183ebf1434ca63e59 authored over 2 years ago by Pavel Dimens <[email protected]>
another attempt

a1efd6e04ad9ae798c6210d3eada4fc9065518d6 authored over 2 years ago by Pavel Dimens <[email protected]>
fix action

656dd21eafca283096419a8f2ac48deb77767f35 authored over 2 years ago by Pavel Dimens <[email protected]>
try again

5379cda5cc014e1c3905c1dcbbaed2cf33ce4823 authored over 2 years ago by Pavel Dimens <[email protected]>
fix path

7b41a7646c0621a932b46d89fadaff2ac971d8c5 authored over 2 years ago by Pavel Dimens <[email protected]>
change pkg add syntax

b624fdf9dfb9f94d2d4ae24032d6a5b6b0ffa394 authored over 2 years ago by Pavel Dimens <[email protected]>
fix Pkg.add() call

216744188aa1fcd88e16aaabc4ee5c5cc26db6d5 authored over 2 years ago by Pavel Dimens <[email protected]>
attempt to add upstream testing

4a57317c5e938baf41571fffd62ee7385a41dbc4 authored over 2 years ago by Pavel Dimens <[email protected]>
rm progressbar here

a3079afc62b3be576aa40abc299a98c397fae268 authored over 2 years ago by Pavel Dimens <[email protected]>
update Term.progress => Term.Progress

94480cfcea8a4710e06033888a70d79b8761d812 authored over 2 years ago by Pavel Dimens <[email protected]>
allelematrix => matrix

13d8334fb60898dfa1f607cae93154c7fefb4ad4 authored over 2 years ago by Pavel Dimens <[email protected]>
housekeeping

748a2f4589bd959f81e791fa658d439edd80387b authored over 2 years ago by Pavel Dimens <[email protected]>
Merge pull request #106 from BioJulia/compathelper/new_version/2022-06-21-02-01-06-924-00475557151

CompatHelper: bump compat for Term to 1, (keep existing compat)

2156dd0d3c97a05fc01a2c0a6032446123be6c17 authored over 2 years ago by Pavel V. Dimens <[email protected]>
Merge branch 'dev' into compathelper/new_version/2022-06-21-02-01-06-924-00475557151

0842cc67de023564fd78f13b43e528d4f030794c authored over 2 years ago by Pavel V. Dimens <[email protected]>
add julia 1.7

115a95e2b484a3f87da88198ce1da5e0d2d85202 authored over 2 years ago by Pavel Dimens <[email protected]>
bump PopGenCore compat to 0.6.0

82fa72f78ddb24da698be9048d7ec745184f1766 authored over 2 years ago by Pavel Dimens <[email protected]>
fixes

b878567386e1b667e7fd119ca1e21bebb26fa0a6 authored over 2 years ago by Pavel Dimens <[email protected]>
CompatHelper: bump compat for Term to 1, (keep existing compat)

2b8538f0a79c1d8c1affbd5b0ac9fe319f951aa6 authored over 2 years ago by CompatHelper Julia <[email protected]>
Merge pull request #105 from BioJulia/compathelper/new_version/2022-06-07-01-53-48-361-04287279668

CompatHelper: add new compat entry for TSne at version 1, (keep existing compat)

808da81a3a116b4b219acf9f282c891d9c58eaa9 authored over 2 years ago by Pavel V. Dimens <[email protected]>
CompatHelper: add new compat entry for TSne at version 1, (keep existing compat)

7b85048da1142d0d22e7bd1a6b667af14de0fa66 authored over 2 years ago by CompatHelper Julia <[email protected]>
add t-sne

b1b932131cc3d2da3f45b6a53b147f98ef1bbf28 authored over 2 years ago by Pavel Dimens <[email protected]>
add bugs where not consistent with Coancestry

16e2553e3d18939fd715029ef066fab90626f732 authored over 2 years ago by Pavel Dimens <[email protected]>
fixed LynchLi math

d806f94c10fb615932d382d2844871038310a14d authored over 2 years ago by Pavel Dimens <[email protected]>
add coancestry results for validation

b17f559967d361b1bd3b03edd9fc0aef07183ccc authored over 2 years ago by Pavel Dimens <[email protected]>
fix moran

564327e90c42f68b2ecc8dac489b18b4a37d33d2 authored over 2 years ago by Pavel Dimens <[email protected]>
add simple test function

6a83bdf4e9ff093d79d087e5a2058d79550e0941 authored over 2 years ago by Pavel Dimens <[email protected]>
tidy

0ff7770399f125979fb3435bcc9dd1577304547f authored over 2 years ago by Pavel Dimens <[email protected]>
split out

58d6119cd5911118fd97efe58352972e6ef06cc7 authored over 2 years ago by Pavel Dimens <[email protected]>
split out estimators

0698227b946e0f74465ab98a40a8375d32423aaf authored over 2 years ago by Pavel Dimens <[email protected]>
rm progressbar b/c its getting deprecated

062034f786a8d35f0d406044638212e37c23efd7 authored over 2 years ago by Pavel Dimens <[email protected]>
add todo

c0c4d84d8344cd4cf9cc50e7594bc081120d8553 authored over 2 years ago by Pavel Dimens <[email protected]>
add kinship for specific samples

1dcbefc31672674ef80f4801e7b880859b8c7e40 authored over 2 years ago by Pavel Dimens <[email protected]>