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BioJulia

Bioinformatics and Computational Biology in Julia
Collective - Host: opensource - https://opencollective.com/biojulia - Website: https://biojulia.net - Code: https://github.com/BioJulia

bump version

github.com/BioJulia/BioStructures.jl - e851ea28fdbf1cc6c60ffaf89a4ef0a39403da74 authored almost 5 years ago by Joe Greener <[email protected]>
update news

github.com/BioJulia/BioStructures.jl - 19a15252f6c897a98896222848a11832a371b6df authored almost 5 years ago by Joe Greener <[email protected]>
no indices constructor for Transformation

github.com/BioJulia/BioStructures.jl - 0d05878886c3617e1330aff3fe05ba9723e63a6a authored almost 5 years ago by Joe Greener <[email protected]>
superimposition tests, atol for isapprox

github.com/BioJulia/BioStructures.jl - c9dbe90c4502b6ba61a2772a476d385e1a6a751a authored almost 5 years ago by Joe Greener <[email protected]>
fix fst_global

github.com/BioJulia/PopGen.jl_archive - bdf8fddd5d5381d846aa1e25fa4acb2396035cf0 authored almost 5 years ago by Pavel <[email protected]>
fix fst_global

github.com/BioJulia/PopGen.jl - bdf8fddd5d5381d846aa1e25fa4acb2396035cf0 authored almost 5 years ago by Pavel <[email protected]>
superimpose tests

github.com/BioJulia/BioStructures.jl - 2ce7c195402325824ee077ff599ef51883677f92 authored almost 5 years ago by Joe Greener <[email protected]>
shortcut superimpose for identical sequences

github.com/BioJulia/BioStructures.jl - d14e5101221d62246d79f2d4a787000e2d3113a2 authored almost 5 years ago by Joe Greener <[email protected]>
allselector, loosen version bounds

github.com/BioJulia/BioStructures.jl - 6eea016b32dbc9a4264cbade90e9c619e3214add authored almost 5 years ago by Joe Greener <[email protected]>
docs typo, transformation docs

github.com/BioJulia/BioStructures.jl - 83242e928b07d42da4b8d7ccefdef1d2d1b6a33c authored almost 5 years ago by Joe Greener <[email protected]>
compat version bounds

github.com/BioJulia/BioStructures.jl - 2614bab8f441632f54cae6f376bf3fe2ae59321e authored almost 5 years ago by Joe Greener <[email protected]>
Update sources.md

github.com/BioJulia/PopGen.jl - 7dd1f3fa15ae0e187316b4ff4f7fa18a9105a72e authored almost 5 years ago by Pavel <[email protected]>
Update sources.md

github.com/BioJulia/PopGen.jl_archive - 7dd1f3fa15ae0e187316b4ff4f7fa18a9105a72e authored almost 5 years ago by Pavel <[email protected]>
add locus() function

locus() is a convenience function to iterate over instead of data.loci[!, :locusname]. Has two m...

github.com/BioJulia/PopGen.jl - 6608ae769c7e7f679d775d1fe4714b895392f247 authored almost 5 years ago by Pavel <[email protected]>
add locus() function

locus() is a convenience function to iterate over instead of data.loci[!, :locusname]. Has two m...

github.com/BioJulia/PopGen.jl_archive - 6608ae769c7e7f679d775d1fe4714b895392f247 authored almost 5 years ago by Pavel <[email protected]>
Update dyadic_optimization.jl

github.com/BioJulia/PopGen.jl_archive - a48eb286f7ce8402167d8c9b65b403249e5e9526 authored almost 5 years ago by jdselwyn <[email protected]>
Update dyadic_optimization.jl

github.com/BioJulia/PopGen.jl - a48eb286f7ce8402167d8c9b65b403249e5e9526 authored almost 5 years ago by jdselwyn <[email protected]>
Merge branch 'dev' of https://github.com/pdimens/PopGen.jl into dev

github.com/BioJulia/PopGen.jl - 23e3612bded5d37bbe691b3658fe72f7b5eb27fb authored almost 5 years ago by jdselwyn <[email protected]>
Merge branch 'dev' of https://github.com/pdimens/PopGen.jl into dev

github.com/BioJulia/PopGen.jl_archive - 23e3612bded5d37bbe691b3658fe72f7b5eb27fb authored almost 5 years ago by jdselwyn <[email protected]>
Create dyadic_optimization.jl

github.com/BioJulia/PopGen.jl_archive - d052ba94cbbb0a0302cc13a595a29dec3d54380c authored almost 5 years ago by jdselwyn <[email protected]>
Create dyadic_optimization.jl

github.com/BioJulia/PopGen.jl - d052ba94cbbb0a0302cc13a595a29dec3d54380c authored almost 5 years ago by jdselwyn <[email protected]>
update docs more

and remove commented lines

github.com/BioJulia/PopGen.jl - d880f4f8bbe791da06d4405f484e830a30c71b0f authored almost 5 years ago by Pavel <[email protected]>
update docs more

and remove commented lines

github.com/BioJulia/PopGen.jl_archive - d880f4f8bbe791da06d4405f484e830a30c71b0f authored almost 5 years ago by Pavel <[email protected]>
un-break HWE test

github.com/BioJulia/PopGen.jl_archive - b152941f665865d7a99460d9202f78bd64c37871 authored almost 5 years ago by Pavel <[email protected]>
un-break HWE test

github.com/BioJulia/PopGen.jl - b152941f665865d7a99460d9202f78bd64c37871 authored almost 5 years ago by Pavel <[email protected]>
Set CompatHelper to generate PRs against master

github.com/BioJulia/GenomicFeatures.jl - c724b7895c7475691b33195486633ec553ec530b authored almost 5 years ago by Ciarán O'Mara <[email protected]>
heterozygosity optimizations

github.com/BioJulia/PopGen.jl - 354a68350b950e73fe83527486bdf60d45864132 authored almost 5 years ago by Pavel <[email protected]>
heterozygosity optimizations

github.com/BioJulia/PopGen.jl_archive - 354a68350b950e73fe83527486bdf60d45864132 authored almost 5 years ago by Pavel <[email protected]>
update docs

make csv synonymous with delimited(), make minor touchups to docs, export new read functions

github.com/BioJulia/PopGen.jl - 6f8a7dc67f4f27986edc1e41574da4796efd8fbd authored almost 5 years ago by Pavel <[email protected]>
update docs

make csv synonymous with delimited(), make minor touchups to docs, export new read functions

github.com/BioJulia/PopGen.jl_archive - 6f8a7dc67f4f27986edc1e41574da4796efd8fbd authored almost 5 years ago by Pavel <[email protected]>
add BCF parser

github.com/BioJulia/PopGen.jl - 3d43a37e60eb087e2cc379303777644524e49241 authored almost 5 years ago by Pavel <[email protected]>
add BCF parser

github.com/BioJulia/PopGen.jl_archive - 3d43a37e60eb087e2cc379303777644524e49241 authored almost 5 years ago by Pavel <[email protected]>
move summary to SummaryInfo.jl

github.com/BioJulia/PopGen.jl - 96c4558ecc22f7c17f9101a51a908b8bd7ae2070 authored almost 5 years ago by Pavel <[email protected]>
move summary to SummaryInfo.jl

github.com/BioJulia/PopGen.jl_archive - 96c4558ecc22f7c17f9101a51a908b8bd7ae2070 authored almost 5 years ago by Pavel <[email protected]>
Support for Julia 1.0+ (#9)

Thanks for taking the time to do this @gmassman @timbitz, thanks for conducting a review @kescobo!

github.com/BioJulia/FMIndexes.jl - 3f2e3e7c494dc1c43e4d02cc1d826660dc2bf3c7 authored almost 5 years ago by Garrett Massman <[email protected]>
Update PairwiseRelatedness.jl

github.com/BioJulia/PopGen.jl_archive - 292c6120a9003c6865a89109787264d40c61ea24 authored almost 5 years ago by Jason Selwyn <[email protected]>
Update PairwiseRelatedness.jl

github.com/BioJulia/PopGen.jl - 292c6120a9003c6865a89109787264d40c61ea24 authored almost 5 years ago by Jason Selwyn <[email protected]>
Update PairwiseRelatedness.jl

Co-Authored-By: Jason Selwyn <[email protected]>

github.com/BioJulia/PopGen.jl - e23a2d86f855bb4c1aa8ec96ec271df96150ce67 authored almost 5 years ago by Jason Selwyn <[email protected]>
Update PairwiseRelatedness.jl

Co-Authored-By: Jason Selwyn <[email protected]>

github.com/BioJulia/PopGen.jl_archive - e23a2d86f855bb4c1aa8ec96ec271df96150ce67 authored almost 5 years ago by Jason Selwyn <[email protected]>
Update relatedness.md

github.com/BioJulia/PopGen.jl_archive - 905ef7449071ada151affca1a316b8cbbe0b4aec authored almost 5 years ago by Jason Selwyn <[email protected]>
Update relatedness.md

github.com/BioJulia/PopGen.jl - 905ef7449071ada151affca1a316b8cbbe0b4aec authored almost 5 years ago by Jason Selwyn <[email protected]>
Update relatedness.md

github.com/BioJulia/PopGen.jl_archive - 62eca008e078b515706e600af22cbdf88445961e authored almost 5 years ago by Jason Selwyn <[email protected]>
Update relatedness.md

github.com/BioJulia/PopGen.jl - 62eca008e078b515706e600af22cbdf88445961e authored almost 5 years ago by Jason Selwyn <[email protected]>
Update PairwiseRelatedness.jl

github.com/BioJulia/PopGen.jl_archive - 9e18057b38341adf5f8f6d9d7b6ed613c49e9c69 authored almost 5 years ago by Jason Selwyn <[email protected]>
Update PairwiseRelatedness.jl

github.com/BioJulia/PopGen.jl - 9e18057b38341adf5f8f6d9d7b6ed613c49e9c69 authored almost 5 years ago by Jason Selwyn <[email protected]>
Queller & Goodnight

github.com/BioJulia/PopGen.jl - 9afa0248da6e972839e4b3a312636ec31c37b85f authored almost 5 years ago by Jason Selwyn <[email protected]>
Queller & Goodnight

github.com/BioJulia/PopGen.jl_archive - 9afa0248da6e972839e4b3a312636ec31c37b85f authored almost 5 years ago by Jason Selwyn <[email protected]>
Fix deprecations (#6)

github.com/BioJulia/WaveletMatrices.jl - bd8e65a76a41d8343e437328308aa934ae190b45 authored almost 5 years ago by femtocleaner[bot] <30578772+femtocleaner[bot]@users.noreply.github.com>
Add Project.toml and Manifest.toml (#8)

* Delete REQUIRE

* Add files via upload

* Update Project.toml

* Delete REQUIRE

* Add...

github.com/BioJulia/WaveletMatrices.jl - 1ade0c9a4ab4f38ebde12a02cc388114beb2240d authored almost 5 years ago by S R Gokul Krishnan <[email protected]>
do not import Base: select (#9)

`Base.select` does not exist, and an imported `select` is not used in the source code.

github.com/BioJulia/WaveletMatrices.jl - 611e5db674b639cebc96de4a6e547bba65599b9a authored almost 5 years ago by Jeffrey Sarnoff <[email protected]>
Merge branch 'dev' of https://github.com/pdimens/PopGen.jl into dev

github.com/BioJulia/PopGen.jl - 58622e7e216ea084a1c0256174a96af9bb290f5b authored almost 5 years ago by Pavel <[email protected]>
Merge branch 'dev' of https://github.com/pdimens/PopGen.jl into dev

github.com/BioJulia/PopGen.jl_archive - 58622e7e216ea084a1c0256174a96af9bb290f5b authored almost 5 years ago by Pavel <[email protected]>
big docs cleanup for latest

github.com/BioJulia/PopGen.jl - 29beb9cef5d48f646c4dcf2d92c1de356a3ce66c authored almost 5 years ago by Pavel <[email protected]>
big docs cleanup for latest

github.com/BioJulia/PopGen.jl_archive - 29beb9cef5d48f646c4dcf2d92c1de356a3ce66c authored almost 5 years ago by Pavel <[email protected]>
Update PairwiseRelatedness.jl

github.com/BioJulia/PopGen.jl_archive - bbf84f60aa9d8552543cb966168b19b59c2851d4 authored almost 5 years ago by jdselwyn <[email protected]>
Update PairwiseRelatedness.jl

github.com/BioJulia/PopGen.jl - bbf84f60aa9d8552543cb966168b19b59c2851d4 authored almost 5 years ago by jdselwyn <[email protected]>
Typo (#4)

github.com/BioJulia/WaveletMatrices.jl - aeddb5d8d3c7ea77b3c2aabdb56f0a971c652ae2 authored almost 5 years ago by Páll Haraldsson <[email protected]>
Merge branch 'dev' of https://github.com/pdimens/PopGen.jl into dev

github.com/BioJulia/PopGen.jl - 953dbf52a557912bb3a687b1cc5d23d525778e99 authored almost 5 years ago by jdselwyn <[email protected]>
Merge branch 'dev' of https://github.com/pdimens/PopGen.jl into dev

github.com/BioJulia/PopGen.jl_archive - 953dbf52a557912bb3a687b1cc5d23d525778e99 authored almost 5 years ago by jdselwyn <[email protected]>
update docs

github.com/BioJulia/PopGen.jl_archive - 3b54c7fc15eaf4bd1644528611901c80dbd8c1f6 authored almost 5 years ago by Pavel <[email protected]>
update docs

github.com/BioJulia/PopGen.jl - 3b54c7fc15eaf4bd1644528611901c80dbd8c1f6 authored almost 5 years ago by Pavel <[email protected]>
Update PairwiseRelatedness.jl

github.com/BioJulia/PopGen.jl - 642cdf8cb3004ceb6e7f738ede11dcb205d6b968 authored almost 5 years ago by jdselwyn <[email protected]>
Update PairwiseRelatedness.jl

github.com/BioJulia/PopGen.jl_archive - 642cdf8cb3004ceb6e7f738ede11dcb205d6b968 authored almost 5 years ago by jdselwyn <[email protected]>
replace logo in docs

github.com/BioJulia/PopGen.jl - 757184578a214d67117bbfcad50119daf3d8b054 authored almost 5 years ago by Pavel <[email protected]>
replace logo in docs

github.com/BioJulia/PopGen.jl_archive - 757184578a214d67117bbfcad50119daf3d8b054 authored almost 5 years ago by Pavel <[email protected]>
Merge branch 'dev' of https://github.com/pdimens/PopGen.jl into dev

github.com/BioJulia/PopGen.jl_archive - c91f0f9bd6b68a13856d1826183d7b680086ceea authored almost 5 years ago by Pavel <[email protected]>
Merge branch 'dev' of https://github.com/pdimens/PopGen.jl into dev

github.com/BioJulia/PopGen.jl - c91f0f9bd6b68a13856d1826183d7b680086ceea authored almost 5 years ago by Pavel <[email protected]>
fix hwe and update docs

github.com/BioJulia/PopGen.jl_archive - 57361068d6b8563710c3f0aedb57103ea807a213 authored almost 5 years ago by Pavel <[email protected]>
fix hwe and update docs

github.com/BioJulia/PopGen.jl - 57361068d6b8563710c3f0aedb57103ea807a213 authored almost 5 years ago by Pavel <[email protected]>
Update README.md

github.com/BioJulia/PopGen.jl_archive - fdc13bd585bd31d67b8c1d6de7651ad85a6d75cd authored almost 5 years ago by Pavel V. Dimens <[email protected]>
Update README.md

github.com/BioJulia/PopGen.jl - fdc13bd585bd31d67b8c1d6de7651ad85a6d75cd authored almost 5 years ago by Pavel V. Dimens <[email protected]>
update docs a bit, rewrite summary()

github.com/BioJulia/PopGen.jl - 315835881f77eeca23304e2b8f440e5ce7dbcd1d authored almost 5 years ago by Pavel <[email protected]>
update docs a bit, rewrite summary()

github.com/BioJulia/PopGen.jl_archive - 315835881f77eeca23304e2b8f440e5ce7dbcd1d authored almost 5 years ago by Pavel <[email protected]>
vfc() to PopObj improvements

github.com/BioJulia/PopGen.jl - 4dc9c7b0c5a3cabfe08f325c22bd1ca831f0c76b authored almost 5 years ago by Pavel <[email protected]>
vfc() to PopObj improvements

github.com/BioJulia/PopGen.jl_archive - 4dc9c7b0c5a3cabfe08f325c22bd1ca831f0c76b authored almost 5 years ago by Pavel <[email protected]>
add generic method to allele_ and geno_ functions

Additional method(s) will accomodate generic typing for PopObj's that have unequal ploidy across...

github.com/BioJulia/PopGen.jl_archive - 44344cc2c6a62566774ab314eca262caea43bfdc authored almost 5 years ago by Pavel <[email protected]>
add generic method to allele_ and geno_ functions

Additional method(s) will accomodate generic typing for PopObj's that have unequal ploidy across...

github.com/BioJulia/PopGen.jl - 44344cc2c6a62566774ab314eca262caea43bfdc authored almost 5 years ago by Pavel <[email protected]>
rewrite missing(), add read()

github.com/BioJulia/PopGen.jl - eb5250c3f6650d45fc8f59d5a05b372ef6d74c23 authored almost 5 years ago by Pavel <[email protected]>
rewrite missing(), add read()

github.com/BioJulia/PopGen.jl_archive - eb5250c3f6650d45fc8f59d5a05b372ef6d74c23 authored almost 5 years ago by Pavel <[email protected]>
fixed all broken f() in AlleleFreq

moved allele_avg to SummaryInfo.jl

github.com/BioJulia/PopGen.jl_archive - a6d993158e0b2530618022abc6cf0baffe06523b authored almost 5 years ago by Pavel <[email protected]>
fixed all broken f() in AlleleFreq

moved allele_avg to SummaryInfo.jl

github.com/BioJulia/PopGen.jl - a6d993158e0b2530618022abc6cf0baffe06523b authored almost 5 years ago by Pavel <[email protected]>
USe @info instead of info (#36)

github.com/BioJulia/BioAlignments.jl - 645f76a4b00d34098db2f6b55b63035633a45ff9 authored almost 5 years ago by tanhevg <[email protected]>
Fixed incorrect docstring reference

github.com/BioJulia/GenomicAnnotations.jl - e6c35dcf01ef4da6c7d0c8114fe8413d3907f05b authored almost 5 years ago by Karl Dyrhage <[email protected]>
Fixed incorrect docstring reference

github.com/BioJulia/GenomicAnnotations.jl - 0f3cad3665cbe2bec3ab932791c493b946df876b authored almost 5 years ago by Karl Dyrhage <[email protected]>
Fixed incorrect docstring reference

github.com/BioJulia/GenomicAnnotations.jl - fd5ad0a25cc328ec276d4dce8010984c76bb58ab authored almost 5 years ago by Karl Dyrhage <[email protected]>
add info comment to richness

github.com/BioJulia/PopGen.jl - 80ef0b1a0bca9b5fda155486e303992218cc0ea3 authored almost 5 years ago by Pavel <[email protected]>
add info comment to richness

github.com/BioJulia/PopGen.jl_archive - 80ef0b1a0bca9b5fda155486e303992218cc0ea3 authored almost 5 years ago by Pavel <[email protected]>
optimize for speed and allocations

github.com/BioJulia/PopGen.jl - c1ff6c782819813b8a4b241105fc15887cc86b45 authored almost 5 years ago by Pavel <[email protected]>
optimize for speed and allocations

github.com/BioJulia/PopGen.jl_archive - c1ff6c782819813b8a4b241105fc15887cc86b45 authored almost 5 years ago by Pavel <[email protected]>
Merge branch 'dev' of https://github.com/pdimens/PopGen.jl into dev

github.com/BioJulia/PopGen.jl_archive - 4d00852a1e5b83be9ee84ffdc2a62f7a8dbd5636 authored almost 5 years ago by Pavel <[email protected]>
Merge branch 'dev' of https://github.com/pdimens/PopGen.jl into dev

github.com/BioJulia/PopGen.jl - 4d00852a1e5b83be9ee84ffdc2a62f7a8dbd5636 authored almost 5 years ago by Pavel <[email protected]>
Update AlleleFreq.jl

github.com/BioJulia/PopGen.jl - 9f5fdd74a0914f76ef8f079e2b76b46fe5adec33 authored almost 5 years ago by Pavel <[email protected]>
Update AlleleFreq.jl

github.com/BioJulia/PopGen.jl_archive - 9f5fdd74a0914f76ef8f079e2b76b46fe5adec33 authored almost 5 years ago by Pavel <[email protected]>
Merge branch 'dev' of https://github.com/pdimens/PopGen.jl into dev

github.com/BioJulia/PopGen.jl_archive - 79731099af6b6992f1936b7a1d2d5697fd56e050 authored almost 5 years ago by jdselwyn <[email protected]>
Merge branch 'dev' of https://github.com/pdimens/PopGen.jl into dev

github.com/BioJulia/PopGen.jl - 79731099af6b6992f1936b7a1d2d5697fd56e050 authored almost 5 years ago by jdselwyn <[email protected]>
Update SummaryInfo.jl

github.com/BioJulia/PopGen.jl_archive - 4abc30ef65739b3f3a090f7bdec98e287bfb51da authored almost 5 years ago by jdselwyn <[email protected]>
Update SummaryInfo.jl

github.com/BioJulia/PopGen.jl - 4abc30ef65739b3f3a090f7bdec98e287bfb51da authored almost 5 years ago by jdselwyn <[email protected]>
fixed nancycats

github.com/BioJulia/PopGen.jl_archive - 4acdb674093d1d8f6b8431e7371caacb1539c83b authored almost 5 years ago by Pavel <[email protected]>
fixed nancycats

github.com/BioJulia/PopGen.jl - 4acdb674093d1d8f6b8431e7371caacb1539c83b authored almost 5 years ago by Pavel <[email protected]>
Create SummaryInfo.jl

Basic allelic richness. To be built upon

github.com/BioJulia/PopGen.jl - 6e6f0867620d89363d9ddb61268ded968993b252 authored almost 5 years ago by jdselwyn <[email protected]>