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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

rewrite API docs

github.com/BioJulia/PopGen.jl - 4743da94aa8d86e710aeb25beb1d3685f65e93aa authored over 4 years ago by Pavel <[email protected]>
rewrite API docs

github.com/BioJulia/PopGen.jl_archive - 4743da94aa8d86e710aeb25beb1d3685f65e93aa authored over 4 years ago by Pavel <[email protected]>
export collect, fix visualisation example

github.com/BioJulia/BioStructures.jl - c077b7fd1dca160583113d91fe0c12d99ceaca15 authored over 4 years ago by Joe Greener <[email protected]>
docstrings for extended functions

github.com/BioJulia/BioStructures.jl - abc9bd4a13a7e85c8c65cb7f83e81f552561d040 authored over 4 years ago by Joe Greener <[email protected]>
updates and fixes to heterozygosity

Additional details added to the heterozygosity docs

github.com/BioJulia/PopGen.jl_archive - f5afe486a71524263d96c2f1c9d3b4d42c9b10f9 authored over 4 years ago by Pavel V. Dimens <[email protected]>
updates and fixes to heterozygosity

Additional details added to the heterozygosity docs

github.com/BioJulia/PopGen.jl - f5afe486a71524263d96c2f1c9d3b4d42c9b10f9 authored over 4 years ago by Pavel V. Dimens <[email protected]>
combine identical functions

github.com/BioJulia/BioStructures.jl - 73d98fba3f7d897d9d8535d9df94350cab62c69c authored over 4 years ago by Joe Greener <[email protected]>
docstrings have single leading line

github.com/BioJulia/BioStructures.jl - 17f3eee072058b7d1d7b89c52741dea86b0b8581 authored over 4 years ago by Joe Greener <[email protected]>
update hardyweinberg

Completed adding p-adjustment and by-population testing

github.com/BioJulia/PopGen.jl_archive - df62535d5c4368a8daf89e59f7e82df56817de3f authored over 4 years ago by Pavel V. Dimens <[email protected]>
update hardyweinberg

Completed adding p-adjustment and by-population testing

github.com/BioJulia/PopGen.jl - df62535d5c4368a8daf89e59f7e82df56817de3f authored over 4 years ago by Pavel V. Dimens <[email protected]>
ref tags in docs, other Bio3DView example

github.com/BioJulia/BioStructures.jl - 252184c07d5f08b578243a80f755520ef70ebb73 authored over 4 years ago by Joe Greener <[email protected]>
ref tags in docs, try embedding Bio3DView

github.com/BioJulia/BioStructures.jl - 73d3d35e3b142d9f6a8901f08eb2186c1f923329 authored over 4 years ago by Joe Greener <[email protected]>
import to using

github.com/BioJulia/BioStructures.jl - e6401502b8e33196594881c7e16e937cd071ea54 authored over 4 years ago by Joe Greener <[email protected]>
New version: XAM v0.2.2 (#64)

UUID: d759349c-bcba-11e9-07c2-5b90f8f05f7c
Repo: https://github.com/BioJulia/XAM.jl.git
Tree: d9...

github.com/BioJulia/BioJuliaRegistry - 23a5da6768b5a296f382f7cb093991d558f934a8 authored over 4 years ago by Helix <[email protected]>
Merge branch 'master' into develop

github.com/BioJulia/XAM.jl - af675a237162bb5781c223ac935f7fff98f8b53b authored over 4 years ago by Ciarán O'Mara <[email protected]>
Merge branch 'hotfix/memory'

github.com/BioJulia/XAM.jl - 0e0908f9852a2c1c3dc6d1214f993e3e364aeb73 authored over 4 years ago by Ciarán O'Mara <[email protected]>
Ensure fields are empty

github.com/BioJulia/XAM.jl - 3e1a8023721531f2cb64de9db1bb40234d757733 authored over 4 years ago by Ciarán O'Mara <[email protected]>
Increment version

github.com/BioJulia/XAM.jl - 89d7e94f77c449568438fb545cd4415f8737efb5 authored over 4 years ago by Ciarán O'Mara <[email protected]>
re-order API autodocs

github.com/BioJulia/BioStructures.jl - 2f973cc5f61add27d23498caacaac16bcaf9dc96 authored over 4 years ago by Joe Greener <[email protected]>
API section in docs

github.com/BioJulia/BioStructures.jl - 83064ffeaf0684a55eb228af90aadaa9ec9b97fe authored over 4 years ago by Joe Greener <[email protected]>
related software in docs

github.com/BioJulia/BioStructures.jl - 613281da71479ba64c7b03f53a7a2653d24f9e74 authored over 4 years ago by Joe Greener <[email protected]>
remove readpdb

github.com/BioJulia/BioStructures.jl - fbdd7ff50bc8dc70a2e22cd9a06bab8c3af270c3 authored over 4 years ago by Joe Greener <[email protected]>
kwargs file_format -> format and pdb_dir -> dir

github.com/BioJulia/BioStructures.jl - 702f96e550e214fa5cd92a6b5d61d2f95582a460 authored over 4 years ago by Joe Greener <[email protected]>
Update README.md

github.com/BioJulia/PopGen.jl_archive - 77e4a5dec6ac9e28cf89988c563cd72ebeb7651c authored over 4 years ago by Pavel <[email protected]>
Update README.md

github.com/BioJulia/PopGen.jl - 77e4a5dec6ac9e28cf89988c563cd72ebeb7651c authored over 4 years ago by Pavel <[email protected]>
Update .gitignore

github.com/BioJulia/PopGen.jl - dbe21a60833951dc87af0b2c6ab1c6751a6d3bfb authored over 4 years ago by Pavel <[email protected]>
Update .gitignore

github.com/BioJulia/PopGen.jl_archive - dbe21a60833951dc87af0b2c6ab1c6751a6d3bfb authored over 4 years ago by Pavel <[email protected]>
Delete package.json

github.com/BioJulia/PopGen.jl_archive - bd5762d6735ccf140f959e4d0c3e9c8c9348637e authored over 4 years ago by Pavel V. Dimens <[email protected]>
Delete package.json

github.com/BioJulia/PopGen.jl - bd5762d6735ccf140f959e4d0c3e9c8c9348637e authored over 4 years ago by Pavel V. Dimens <[email protected]>
Delete package-lock.json

github.com/BioJulia/PopGen.jl - 8c997255d19e7294265ee3ebfc1c1ff010db23eb authored over 4 years ago by Pavel V. Dimens <[email protected]>
Delete package-lock.json

github.com/BioJulia/PopGen.jl_archive - 8c997255d19e7294265ee3ebfc1c1ff010db23eb authored over 4 years ago by Pavel V. Dimens <[email protected]>
update .gitignore

github.com/BioJulia/PopGen.jl_archive - aced09e7079e1ca39bb47700d164c496cf3549f4 authored over 4 years ago by Pavel <[email protected]>
update .gitignore

github.com/BioJulia/PopGen.jl - aced09e7079e1ca39bb47700d164c496cf3549f4 authored over 4 years ago by Pavel <[email protected]>
Merge branch 'pdimens' into dev

github.com/BioJulia/PopGen.jl - d38deae6ffa58d9392212d449de6f98be740c77b authored over 4 years ago by Pavel <[email protected]>
Merge branch 'pdimens' into dev

github.com/BioJulia/PopGen.jl_archive - d38deae6ffa58d9392212d449de6f98be740c77b authored over 4 years ago by Pavel <[email protected]>
Update comparison.md

github.com/BioJulia/PopGen.jl_archive - 4f36c9d88253fa92aba9ec10d63fcff7050b4b6a authored over 4 years ago by Pavel <[email protected]>
Update comparison.md

github.com/BioJulia/PopGen.jl - 4f36c9d88253fa92aba9ec10d63fcff7050b4b6a authored over 4 years ago by Pavel <[email protected]>
Update .gitignore

github.com/BioJulia/PopGen.jl - 99298b958ee1f46aa7358264a74ada80e2e64497 authored over 4 years ago by Pavel <[email protected]>
Update .gitignore

github.com/BioJulia/PopGen.jl_archive - 99298b958ee1f46aa7358264a74ada80e2e64497 authored over 4 years ago by Pavel <[email protected]>
big docs changes

github.com/BioJulia/PopGen.jl_archive - e8a26f229bd26e99ddba9fa83ecd178c14f45b60 authored over 4 years ago by Pavel <[email protected]>
big docs changes

github.com/BioJulia/PopGen.jl - e8a26f229bd26e99ddba9fa83ecd178c14f45b60 authored over 4 years ago by Pavel <[email protected]>
Add BioSequences dependency

github.com/BioJulia/KmerAnalysis.jl - 046746c52c9587ee3cc2a61c53a142c85ebb6990 authored over 4 years ago by Ben J. Ward <[email protected]>
Add BioJuliaRegistry to CI

github.com/BioJulia/KmerAnalysis.jl - 39ef18173885c7748876fdca5c1bac98f2a85da5 authored over 4 years ago by Ben J. Ward <[email protected]>
bump version, update news

github.com/BioJulia/BioStructures.jl - aebc0f828e1a976cfaf319f6756775324bccc739 authored over 4 years ago by Joe Greener <[email protected]>
Update config.js

github.com/BioJulia/PopGen.jl_archive - 0571492f5732507b28d38158da7536a54b9c357e authored over 4 years ago by Pavel <[email protected]>
Update config.js

github.com/BioJulia/PopGen.jl - 0571492f5732507b28d38158da7536a54b9c357e authored over 4 years ago by Pavel <[email protected]>
update docs

github.com/BioJulia/PopGen.jl - 8024d5f4c7cd18a480f04f2664ff9a7546720d8c authored over 4 years ago by Pavel <[email protected]>
update docs

github.com/BioJulia/PopGen.jl_archive - 8024d5f4c7cd18a480f04f2664ff9a7546720d8c authored over 4 years ago by Pavel <[email protected]>
Merge pull request #14 from BioJulia/compathelper/new_version/2020-04-05-13-04-24-796-4199874466

CompatHelper: bump compat for "RecipesBase" to "1.0"

github.com/BioJulia/MicrobiomePlots.jl - 0c75f74bee0ed5b38b6e51e17d2271ff4742c519 authored over 4 years ago by Kevin Bonham <[email protected]>
compat bounds for RecipesBase

github.com/BioJulia/BioStructures.jl - b50ceee76ac77645d8b878e7dfaa7d887bfd060e authored over 4 years ago by Joe Greener <[email protected]>
CompatHelper: bump compat for "CodecZlib" to "0.7" (#18)

Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>

github.com/BioJulia/BioStructures.jl - f501b3bea35f4bcab34ed72379244ed8027fe2b1 authored over 4 years ago by github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
reorganize

github.com/BioJulia/PopGen.jl_archive - 3e0165c3b4148ac702a093645e136796c7f5c1d8 authored over 4 years ago by Pavel <[email protected]>
reorganize

github.com/BioJulia/PopGen.jl - 3e0165c3b4148ac702a093645e136796c7f5c1d8 authored over 4 years ago by Pavel <[email protected]>
Update .gitignore

github.com/BioJulia/PopGen.jl - 59372f54ef4cd586600fa406538133a73d116096 authored over 4 years ago by Pavel <[email protected]>
Update .gitignore

github.com/BioJulia/PopGen.jl_archive - 59372f54ef4cd586600fa406538133a73d116096 authored over 4 years ago by Pavel <[email protected]>
Update .gitignore

github.com/BioJulia/PopGen.jl_archive - ed734001f0d190915be29b766d90567c0ffbab7a authored over 4 years ago by Pavel <[email protected]>
Update .gitignore

github.com/BioJulia/PopGen.jl - ed734001f0d190915be29b766d90567c0ffbab7a authored over 4 years ago by Pavel <[email protected]>
Update .gitignore

github.com/BioJulia/PopGen.jl - ebaa750ae6eaf8a1e55d785066dc39ab78ecc419 authored over 4 years ago by Pavel <[email protected]>
Update .gitignore

github.com/BioJulia/PopGen.jl_archive - ebaa750ae6eaf8a1e55d785066dc39ab78ecc419 authored over 4 years ago by Pavel <[email protected]>
add things to gitignore

github.com/BioJulia/PopGen.jl_archive - 1eddc349b97cae2c127f5e6f5dc4fd6cd2e59086 authored over 4 years ago by Pavel Dimens <[email protected]>
add things to gitignore

github.com/BioJulia/PopGen.jl - 1eddc349b97cae2c127f5e6f5dc4fd6cd2e59086 authored over 4 years ago by Pavel Dimens <[email protected]>
Update .gitignore

github.com/BioJulia/PopGen.jl - 77c4cb029ff8ecc3ea6486bb77ff5e165b109c37 authored over 4 years ago by Pavel V. Dimens <[email protected]>
Update .gitignore

github.com/BioJulia/PopGen.jl_archive - 77c4cb029ff8ecc3ea6486bb77ff5e165b109c37 authored over 4 years ago by Pavel V. Dimens <[email protected]>
Update .gitignore

github.com/BioJulia/PopGen.jl_archive - 14fac36e3e2457bbdd54a49070cdc374b6878f2a authored over 4 years ago by Pavel V. Dimens <[email protected]>
Update .gitignore

github.com/BioJulia/PopGen.jl - 14fac36e3e2457bbdd54a49070cdc374b6878f2a authored over 4 years ago by Pavel V. Dimens <[email protected]>
Update .gitignore

github.com/BioJulia/PopGen.jl - 5cec6b2d243ffd7329768fe9a000ee0289c83b9e authored over 4 years ago by Pavel V. Dimens <[email protected]>
Update .gitignore

github.com/BioJulia/PopGen.jl_archive - 5cec6b2d243ffd7329768fe9a000ee0289c83b9e authored over 4 years ago by Pavel V. Dimens <[email protected]>
begin migration from mkdocs to vuepress

github.com/BioJulia/PopGen.jl_archive - a5c0c4fd56a08aac26876c4bbaf4d3bab71d73cb authored over 4 years ago by Pavel Dimens <[email protected]>
begin migration from mkdocs to vuepress

github.com/BioJulia/PopGen.jl - a5c0c4fd56a08aac26876c4bbaf4d3bab71d73cb authored over 4 years ago by Pavel Dimens <[email protected]>
Create CompatHelper.yml

github.com/BioJulia/BioStructures.jl - ba20dcc5199fc8b766e060a0aaf830789a642f67 authored over 4 years ago by Joe Greener <[email protected]>
CompatHelper: bump compat for "RecipesBase" to "1.0"

github.com/BioJulia/MicrobiomePlots.jl - 1cc6cd4ec2551aa60f10ef4c91dfb0d97315f055 authored over 4 years ago by github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
update heterozygosity to correct for pop and popsize

github.com/BioJulia/PopGen.jl_archive - 82f37c3405be8e57f57c802e60d6955501558850 authored over 4 years ago by Pavel Dimens <[email protected]>
update heterozygosity to correct for pop and popsize

github.com/BioJulia/PopGen.jl - 82f37c3405be8e57f57c802e60d6955501558850 authored over 4 years ago by Pavel Dimens <[email protected]>
Add workflow files and travis

github.com/BioJulia/KmerAnalysis.jl - c8bdf18ea19ef855259291c4b74ef53def539566 authored over 4 years ago by Ben J. Ward <[email protected]>
Merge pull request #63 from BioJulia/registrator/genomicvectors/96124ad7/v1.0.0

New package: GenomicVectors v1.0.0

github.com/BioJulia/BioJuliaRegistry - cd8b08685a75c09ff9158942f6b1556f5393d360 authored over 4 years ago by Kevin Bonham <[email protected]>
New package: GenomicVectors v1.0.0

UUID: 96124ad7-5c0a-5c8f-8316-419835a3cefd
Repo: https://github.com/phaverty/GenomicVectors.jl.g...

github.com/BioJulia/BioJuliaRegistry - 2898a464ddbd9cb08f0188abb3fde591a269bf58 authored over 4 years ago by BioJuliaBot <[email protected]>
Add .github files

github.com/BioJulia/KmerAnalysis.jl - 5bfe3c031c9f8fea2308f6bad6e22f0d1755f445 authored over 4 years ago by Ben J. Ward <[email protected]>
Add single thread ram destroyer

github.com/BioJulia/KmerAnalysis.jl - 272b29a7112d9a9fa7adda3255e1033a8b07b89c authored over 4 years ago by Ben J. Ward <[email protected]>
Add MinimizerTable

Make minimizer table construction slightly nicer

github.com/BioJulia/KmerAnalysis.jl - 23e74a798f58228a9b2aa27e78d2081e237d74ec authored over 4 years ago by Ben J. Ward <[email protected]>
Merge pull request #95 from jakobnissen/copy_interface

Revamb copy! and copyto! interface

github.com/BioJulia/BioSequences.jl - 48a05407f7bf37a4289fd3fab7885beaefc4d34e authored over 4 years ago by Jakob Nybo Nissen <[email protected]>
Bugfix copyto!

github.com/BioJulia/BioSequences.jl - 8387ce86842a13d1b6caf1f408f827aedfde6083 authored over 4 years ago by Jakob Nybo Nissen <[email protected]>
Merge pull request #99 from jakobnissen/fasthash

Added fast hashing for kmers

github.com/BioJulia/BioSequences.jl - 260aa4b063a4bbe935c1e10251ed9e8b41b5aab7 authored over 4 years ago by Jakob Nybo Nissen <[email protected]>
Added fast hashing

github.com/BioJulia/BioSequences.jl - a662f8a4c00b26c921471dba7f046b7ba2b42be4 authored over 4 years ago by Jakob Nybo Nissen <[email protected]>
Fixed tests

github.com/BioJulia/BioSequences.jl - 741834724364a8b13187d6a3a59858b1161f42b5 authored over 4 years ago by Jakob Nybo Nissen <[email protected]>
Merge branch 'master' into copy_interface

github.com/BioJulia/BioSequences.jl - db67546551776a460f3fe80e4200d31307414ef4 authored over 4 years ago by Jakob Nybo Nissen <[email protected]>
Revamb copy inferface

github.com/BioJulia/BioSequences.jl - 56da9b7f6ae69023a7c6c2cf6e6581275290456a authored over 4 years ago by Jakob Nybo Nissen <[email protected]>
Merge pull request #97 from jakobnissen/fastrevcomp

Faster reverse and reverse complement

github.com/BioJulia/BioSequences.jl - 35e7f085c0a0b89c288f45476a474e743659c46f authored over 4 years ago by Jakob Nybo Nissen <[email protected]>
Added tests

github.com/BioJulia/BioSequences.jl - 6ddfc896a573b6c7f7bf34bcd223027560a99cea authored over 4 years ago by Jakob Nybo Nissen <[email protected]>
Cap Indexes and XAM entries (#60)

* Cap Indexes

* Cap XAM

github.com/BioJulia/BioJuliaRegistry - cb781bd48a84d0f242442802812ef0a765872cb9 authored over 4 years ago by Ciarán O'Mara <[email protected]>
Fix julia compat entry

github.com/BioJulia/MicrobiomePlots.jl - a25ae196d2f5c037d8228fa923f4c19a1ffa100e authored over 4 years ago by Kevin Bonham <[email protected]>
Update julia tests

github.com/BioJulia/MicrobiomePlots.jl - c85280ffeb709f1354c194c8ab724bf0ce77a151 authored over 4 years ago by Kevin Bonham <[email protected]>
CompatHelper: bump compat for "Colors" to "0.12"

github.com/BioJulia/MicrobiomePlots.jl - 574261e2f6f1c11bc08eda86fc1c47c483f036cf authored over 4 years ago by github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
CompatHelper: bump compat for "StatsPlots" to "0.14"

github.com/BioJulia/MicrobiomePlots.jl - a6c4b036f84be03828dd4e8432431c5c99b9bee5 authored over 4 years ago by Kevin Bonham <[email protected]>
CompatHelper: add new compat entry for "Reexport" at version "0.2"

github.com/BioJulia/MicrobiomePlots.jl - cee3470a39881432c749f8e29d73648be344ca70 authored over 4 years ago by Kevin Bonham <[email protected]>
Genotype and GenotypeArray

Create aliases for NTuple{N, <:Signed} (Genotype) and the vector of them (GenotypeArray), permi...

github.com/BioJulia/PopGen.jl - 97415d524d98ca2dc616552f2e55737c4129ecd7 authored over 4 years ago by Pavel Dimens <[email protected]>
Genotype and GenotypeArray

Create aliases for NTuple{N, <:Signed} (Genotype) and the vector of them (GenotypeArray), permi...

github.com/BioJulia/PopGen.jl_archive - 97415d524d98ca2dc616552f2e55737c4129ecd7 authored over 4 years ago by Pavel Dimens <[email protected]>
test on Julia 1.4, tag release

github.com/BioJulia/BioStructures.jl - 9d4a1a2a70178092ef4a6ffab3b37abe481cd134 authored over 4 years ago by Joe Greener <[email protected]>
Recipesbase compat (#16)

github.com/BioJulia/BioStructures.jl - 50a727faa7173c4be584ca731fded9b2d9e1eed3 authored over 4 years ago by Michael Krabbe Borregaard <[email protected]>
rename chisq as Χ²

Honestly, because we can.

github.com/BioJulia/PopGen.jl_archive - e8779d1315557f5ae23294146dc4e6e5cdd3f873 authored over 4 years ago by Pavel Dimens <[email protected]>
rename chisq as Χ²

Honestly, because we can.

github.com/BioJulia/PopGen.jl - e8779d1315557f5ae23294146dc4e6e5cdd3f873 authored over 4 years ago by Pavel Dimens <[email protected]>