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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

BLAST command line support

github.com/BioJulia/Bio.jl - 090764aeb1ced656e84c02bbaaa3d79db4b71866 authored over 8 years ago by Kevin Bonham, PhD <[email protected]>
add blast results xml

github.com/BioJulia/BioFmtSpecimens - c16c32c0815a3381804397e1a859d0f5497a75ea authored over 8 years ago by Kevin Bonham, PhD <[email protected]>
Merge pull request #150 from BioJulia/findnext

add Base.findnext for BioSequence

github.com/BioJulia/Bio.jl - cf915598e3fbdb5e42bbaba310be629535309f55 authored over 8 years ago by Ben J. Ward <[email protected]>
Merge pull request #3 from jgreener64/contribfix

Fix small typo in contributing guidelines

github.com/BioJulia/Contributing - cb875c7548d4ede771ba4e4d85df588d0b0a5b99 authored over 8 years ago by Ben J. Ward <[email protected]>
Fix small typo in contributing guidelines

The extra space led to incorrect rendering in the deployed docs I think.

github.com/BioJulia/Contributing - 0ccbedc9dd669ae2ecdb7ca73e0c0091726a2b43 authored over 8 years ago by Joe Greener <[email protected]>
Merge branch 'modified_logos' of github.com:BioJulia/assets into modified_logos

github.com/BioJulia/assets - 8d85ff83727f270886c79ac167305abe799e56fd authored over 8 years ago by Ward9250 <[email protected]>
Added new icons

github.com/BioJulia/assets - d87671983e85eee34f61811314a434f560231cd4 authored over 8 years ago by Ward9250 <[email protected]>
Merge pull request #9 from kescobo/addblastdb

add prot and nucl blast database

github.com/BioJulia/BioFmtSpecimens - da86996b545d33b532432dbc68d728644353ac11 authored over 8 years ago by Ben J. Ward <[email protected]>
add prot and nucl blast database

github.com/BioJulia/BioFmtSpecimens - f9c17f97feb9a12fca0f1044af4713cfa598ef8f authored over 8 years ago by Kevin Bonham, PhD <[email protected]>
add findnext, findprev, findfirst, findlast

github.com/BioJulia/ReferenceSequences.jl - 05a85661da763ea20f8078b9809dc71232e96d33 authored over 8 years ago by Kenta Sato <[email protected]>
add findnext, findprev, findfirst, and findlast for sequences

github.com/BioJulia/Bio.jl - 87d8dbe4eec73f2277f16869c475b63b6ca14d0d authored over 8 years ago by Kenta Sato <[email protected]>
Merge pull request #146 from jgreener64/strucdocs

Documentation for Bio.Structure

github.com/BioJulia/Bio.jl - 63cbc8503b161c71422fb2fa1ac77dc3889a5f4c authored over 8 years ago by Ben J. Ward <[email protected]>
doctests re-added using BioFmtSpecimens

github.com/BioJulia/Bio.jl - 0ce4ac048afcec6b7ba17c82783bea597aac4f8b authored over 8 years ago by Joe Greener <[email protected]>
minor change to property table

github.com/BioJulia/Bio.jl - 684da652a9e9db7da597a4d74af424c1a66b79e6 authored over 8 years ago by Joe Greener <[email protected]>
remove doc tests

github.com/BioJulia/Bio.jl - ff9c2abb3ac8726e83756d8f7a30ab7e9fd031c2 authored over 8 years ago by Joe Greener <[email protected]>
Added a png version of biojl design

github.com/BioJulia/assets - 4582750299c55137b37366b1709774e671d13d97 authored over 8 years ago by Ben Ward (TGAC) <bward@[email protected]>
Merge branch 'master' into strucdocs

github.com/BioJulia/Bio.jl - b6017a0e6d140c5897a1623ad7b0d51de5d95089 authored over 8 years ago by Joe Greener <[email protected]>
Update README.md

github.com/BioJulia/Contributing - 75ad4832dedd490bfe047397884017d8655c0cc8 authored over 8 years ago by Ben J. Ward <[email protected]>
Update README.md

github.com/BioJulia/Contributing - e9220d3db37961a303c90cefe629fe7a04b2b0ed authored over 8 years ago by Ben J. Ward <[email protected]>
Update code_style.md

github.com/BioJulia/Contributing - c726fd7dd6eacce6a090a501bcae5eeb60c6d50c authored over 8 years ago by Ben J. Ward <[email protected]>
Merge pull request #2 from BioJulia/extend-methods

fix the style of extending methods

github.com/BioJulia/Contributing - e75ebf39048ad7a326037751465849a9a05dadad authored over 8 years ago by Ben J. Ward <[email protected]>
Merge pull request #1 from MichaelHatherly/mh/rename-lapidary

Rename Lapidary to Documenter.

github.com/BioJulia/Contributing - 56ace1afda44f9598465e98c00aa94b8e34bdfac authored over 8 years ago by Ben J. Ward <[email protected]>
fix the style of extending methods

github.com/BioJulia/Contributing - 0eb39ddb205d7a6d9b8c4ba3637f5eac47d9fd5c authored over 8 years ago by Kenta Sato <[email protected]>
Merge pull request #148 from MichaelHatherly/mh/rename-lapidary

Rename Lapidary to Documenter.

github.com/BioJulia/Bio.jl - 63d5fcda86cc3804efb60ec38315f00106c4b16b authored over 8 years ago by Kenta Sato (佐藤 建太) <[email protected]>
Rename Lapidary to Documenter.

https://github.com/MichaelHatherly/Documenter.jl/issues/1

github.com/BioJulia/Contributing - 12177c204627182e0dbe892cca5070c07d2edb63 authored over 8 years ago by Michael Hatherly <[email protected]>
Rename Lapidary to Documenter.

https://github.com/MichaelHatherly/Documenter.jl/issues/1

github.com/BioJulia/Bio.jl - 68790f10e7c430858bd722207c473adc7868ffd1 authored over 8 years ago by Michael Hatherly <[email protected]>
Made new BioJulia, BioJl svg designs, and made glyph sheet for websites, posters, stickers, and other miscellanei

github.com/BioJulia/assets - e53f23742bb8e7038bc661d88a955f85c7591957 authored over 8 years ago by Ward9250 <[email protected]>
Merge branch 'master' into strucdocs

github.com/BioJulia/Bio.jl - d359c0b03730fc797b9aeab20fe9640e249f98c6 authored over 8 years ago by Joe Greener <[email protected]>
Structure docs in Lapidary.jl format; some in-code docs

github.com/BioJulia/Bio.jl - 801513925ba081357294450082d8d276aaa37050 authored over 8 years ago by Joe Greener <[email protected]>
Merge pull request #145 from BioJulia/bioseq-to-aligned

add constructors of AlignedSequence from BioSequences

github.com/BioJulia/Bio.jl - 0ce8751ae5416f8bcb29804741173d4394200833 authored over 8 years ago by Kenta Sato (佐藤 建太) <[email protected]>
add document about AlignedSequence

github.com/BioJulia/Bio.jl - 4fe940ccbdc4df8eff0772022254ed51eebc27cf authored over 8 years ago by Kenta Sato <[email protected]>
add tests of AlignedSequence

github.com/BioJulia/Bio.jl - a413a625a251294d7610a45127e9f88f8ddad162 authored over 8 years ago by Kenta Sato <[email protected]>
add constructors of AlignedSequence from BioSequences

github.com/BioJulia/Bio.jl - f0683860d5cfe285e809c8c7f1a5d7f76d543ae6 authored over 8 years ago by Kenta Sato <[email protected]>
Update README.md

github.com/BioJulia/juju - 253506b0a632be22b059b27d740b3f408cd6a0e2 authored over 8 years ago by Ben J. Ward <[email protected]>
Update README.md

github.com/BioJulia/juju - 2d0fb4a1a6734b3bb06da3aa54b030a311dcde9e authored over 8 years ago by Ben J. Ward <[email protected]>
Initial commit

github.com/BioJulia/juju - 25a66938abde3163ffdedab879028ad696ad6d9d authored over 8 years ago by Ben J. Ward <[email protected]>
Added glyphsheet and web template

github.com/BioJulia/assets - 6b0886671312140f485ba58b699892ea657a5a0a authored over 8 years ago by Ward9250 <[email protected]>
Added github icon to edit later

github.com/BioJulia/assets - 86f1e7971ae1abeb0fe8f0d85bb43d8a006811bf authored over 8 years ago by Ben Ward (TGAC) <bward@[email protected]>
Merge pull request #142 from BioJulia/doc-align

Add document on pairwise alignment

github.com/BioJulia/Bio.jl - d9222b0f9eae083a2262cfe7945277ccc7147520 authored over 8 years ago by Kenta Sato (佐藤 建太) <[email protected]>
fix iterator and pretty printer of pairwise alignment

github.com/BioJulia/Bio.jl - efd96ff5ed6f8ac92c9dd9961d4723010c236ac2 authored over 8 years ago by Kenta Sato <[email protected]>
update docs about Bio.Align

github.com/BioJulia/Bio.jl - 14de59979315c7f98c4cc31118dcfae0125ce709 authored over 8 years ago by Kenta Sato <[email protected]>
add docs of `alphabet` and `gap`

github.com/BioJulia/Bio.jl - 6ff4cd5bf39d8674aa3e37478855bf75c28e3441 authored over 8 years ago by Kenta Sato <[email protected]>
update docs about alignments

github.com/BioJulia/Bio.jl - 1d7bc401e4c85a8e97b3551bf425e7950ed40dd3 authored over 8 years ago by Kenta Sato <[email protected]>
add document about alignment types

github.com/BioJulia/Bio.jl - 9a22fb750f6ed66d28fc72102a39137c4bffc8e7 authored over 8 years ago by Kenta Sato <[email protected]>
add `gap` function

github.com/BioJulia/Bio.jl - dd4e70ceeff64d0749742a2a096b04dd05437b77 authored over 8 years ago by Kenta Sato <[email protected]>
moved about some folders

github.com/BioJulia/assets - 4953b9f9ef40be094e69ea1afb3f597390e77414 authored over 8 years ago by Ward9250 <[email protected]>
Unindented julia blocks in code_style.md

github.com/BioJulia/Contributing - d71c5e94fb67efd43ec6f707ec4f6bbd2062bf4d authored over 8 years ago by Ward9250 <[email protected]>
Unindented julia blocks in code_style.md

github.com/BioJulia/Contributing - a39f3437e7bfcd30af0d490beea32ffbc2f2691d authored over 8 years ago by Ward9250 <[email protected]>
Unindented julia blocks in code_style.md

github.com/BioJulia/Contributing - e8eb75bc7d5c6e76e3bd77dba3677c81462b2486 authored over 8 years ago by Ward9250 <[email protected]>
Added clarification to code_style.md

github.com/BioJulia/Contributing - 8203b16f9fbba4a9526fc821a7ed6561d46cf5cb authored over 8 years ago by Ward9250 <[email protected]>
Added clarification to code_style.md

github.com/BioJulia/Contributing - 1199d7c794581a77e1a54a2cb6b6660155ff6e21 authored over 8 years ago by Ward9250 <[email protected]>
Corrected heading in code style markdown

github.com/BioJulia/Contributing - bbc63d95aa4e26f597484ec8aa3ef43a9e430fdf authored over 8 years ago by Ward9250 <[email protected]>
Added code and package guidelines to the documentation.

github.com/BioJulia/Contributing - 15764597c811107eb26988253ed69b39d9d48bb2 authored over 8 years ago by Ward9250 <[email protected]>
Merge pull request #141 from BioJulia/fix-gencode

fix genetic code

github.com/BioJulia/Bio.jl - ecff46e6100554bf2697ab55e0c226fb273aa001 authored over 8 years ago by Kenta Sato (佐藤 建太) <[email protected]>
add more tests of `translate` on ambiguous codons

github.com/BioJulia/Bio.jl - 9530e0cd8e13a61add8abeff4be718a1ffbe034e authored over 8 years ago by Kenta Sato <[email protected]>
update doc of translate (and clean up code)

github.com/BioJulia/Bio.jl - f9ee222aa12e0e7ccfb249a3b98e611e973f14e8 authored over 8 years ago by Kenta Sato <[email protected]>
fix genetic code

github.com/BioJulia/Bio.jl - 990f8fadf12e8e8621f2490b3dc08a83b42aa5c9 authored over 8 years ago by Kenta Sato <[email protected]>
rewrite genetic code tables

github.com/BioJulia/Bio.jl - a19c64f4b2f2361b43e269fd920945b9760f3e9b authored over 8 years ago by Kenta Sato <[email protected]>
Corrected pulle_requests.md

github.com/BioJulia/Contributing - 0fed78904c2ecbdc23a0829575d7033dc08cc494 authored over 8 years ago by Ward9250 <[email protected]>
Corrected pulle_requests.md

github.com/BioJulia/Contributing - bdf52d4b6e6bd35de215083a2e0206abd4da3738 authored over 8 years ago by Ward9250 <[email protected]>
Corrected pulle_requests.md

github.com/BioJulia/Contributing - 78f92fd326fd7d2da36bd2dd7652816d56bacb5c authored over 8 years ago by Ward9250 <[email protected]>
Added code_style file

github.com/BioJulia/Contributing - 9ed6e64bf4c776a2ca1a3c1e1c2e7474312cb2cd authored over 8 years ago by Ward9250 <[email protected]>
Corrected mkdocs.yml

github.com/BioJulia/Contributing - 0220c49e2079462dd4069ca881e3782ff5d3563f authored over 8 years ago by Ward9250 <[email protected]>
Corrected mkdocs.yml

github.com/BioJulia/Contributing - d9e21117dee8da717cd46024398c72693ba2f3ab authored over 8 years ago by Ward9250 <[email protected]>
Revised pull requests.md

github.com/BioJulia/Contributing - 00a9fd9ebcc60c1c87fc31abb17b9515832fb74d authored over 8 years ago by Ward9250 <[email protected]>
Added links to list in joining page

github.com/BioJulia/Contributing - e9f5a553412162e6b9b6786f6c0aaaaed135f100 authored over 8 years ago by Ward9250 <[email protected]>
Added links to list in joining page

github.com/BioJulia/Contributing - 1bdd2cfa8028a45c79a3ee688e1c5dcf83d29fe0 authored over 8 years ago by Ward9250 <[email protected]>
edited nested list in joinbiojulia.md

github.com/BioJulia/Contributing - 208706b1ad843217b690b09d6cc24f96f1c31687 authored over 8 years ago by Ward9250 <[email protected]>
removed nested list

github.com/BioJulia/Contributing - 96daba41f0a1f3dc99743a28d45162d872d7b99e authored over 8 years ago by Ward9250 <[email protected]>
nesting lists

github.com/BioJulia/Contributing - 6463348d27956574863612f5d10d5868b85bb770 authored over 8 years ago by Ward9250 <[email protected]>
nesting lists

github.com/BioJulia/Contributing - 5d6ab8cc514f923434246a518b90111e2b8ad269 authored over 8 years ago by Ward9250 <[email protected]>
Added hyperlinks to index.md

github.com/BioJulia/Contributing - fe4d40412274417d93deb6f77a98d229c063ff4e authored over 8 years ago by Ward9250 <[email protected]>
edited mkdocs.yml

github.com/BioJulia/Contributing - c125c0864b51edda6d42807dde7c529f6921c03c authored over 8 years ago by Ward9250 <[email protected]>
Added guidance on how to join the GitHub organisation.

github.com/BioJulia/Contributing - 3f89d5ce1dad45e1b11ec12a3de8c9e700af293a authored over 8 years ago by Ward9250 <[email protected]>
Made talk to us point 5.

github.com/BioJulia/Contributing - f5e24e880c45e032cb73d6de51e878b4e4370f49 authored over 8 years ago by Ward9250 <[email protected]>
Made talk to us point 5.

github.com/BioJulia/Contributing - 0b4ba126832740b5b3efaa930199dea7b88f4590 authored over 8 years ago by Ward9250 <[email protected]>
Changed primary colour of page

github.com/BioJulia/Contributing - 1c3cc708508df590c8a7156d80522a2579cf12b9 authored over 8 years ago by Ward9250 <[email protected]>
Added table column to index.md

github.com/BioJulia/Contributing - c079ccb5f98ecba936a6d97a803ec3e302bd4601 authored over 8 years ago by Ward9250 <[email protected]>
Added gitter tables to index.md

github.com/BioJulia/Contributing - 5cf56a2ecfa7bac54432b74dff5feaf239dd115d authored over 8 years ago by Ward9250 <[email protected]>
Added headings to index.md

github.com/BioJulia/Contributing - 19cd9beb0c9cf2312aece862db586dc9514ade71 authored over 8 years ago by Ward9250 <[email protected]>
Improved index.md

github.com/BioJulia/Contributing - ff39deac9d037abcc37d94b4142b24463f05e3c2 authored over 8 years ago by Ward9250 <[email protected]>
Merge branch 'master' of github.com:BioJulia/Contributing

github.com/BioJulia/Contributing - 558858e6cda94a28062477627fff1b457de55937 authored over 8 years ago by Ward9250 <[email protected]>
Edited the pages

github.com/BioJulia/Contributing - a4444d8343b97f9f251d86df14291221b866d73e authored over 8 years ago by Ward9250 <[email protected]>
Update mkdocs.yml

github.com/BioJulia/Contributing - 709ab1fbbe7e53b00ac661722289b884d7f1085a authored over 8 years ago by Ben J. Ward <[email protected]>
Edited markdown table a bit

github.com/BioJulia/Contributing - 20a1276f6cc8ebee0d7aff01afd26ba42acfd385 authored over 8 years ago by Ward9250 <[email protected]>
Merge branch 'master' of github.com:BioJulia/Contributing

github.com/BioJulia/Contributing - 653bc08493f7d8e5572d29b8129cd4f1b2b5d107 authored over 8 years ago by Ward9250 <[email protected]>
Edited markdown table a bit

github.com/BioJulia/Contributing - 2924b4ead5a5be2d823e435787eedfa060a3028a authored over 8 years ago by Ward9250 <[email protected]>
Edited markdown table a bit

github.com/BioJulia/Contributing - 2f3e80ebb2d1160fa8a9ff248331b1ef030a36dd authored over 8 years ago by Ward9250 <[email protected]>
Update README.md

github.com/BioJulia/Contributing - 19da9d5e2916b6762044e3deb6e01f994373eb65 authored over 8 years ago by Ben J. Ward <[email protected]>
Corrected mkdocs.yml and added build directory to gitignore

github.com/BioJulia/Contributing - be8062f6fbd4503b59e8be1b1fdfc30c69d4f50b authored over 8 years ago by Ward9250 <[email protected]>
Update README.md

github.com/BioJulia/Contributing - dcab88695c6f62b544edd19c1b6edc953ec5b1e2 authored over 8 years ago by Ben J. Ward <[email protected]>
Update make.jl

github.com/BioJulia/Contributing - 056027dfd7bcd0ee580ce3498bb571bbf7d18983 authored over 8 years ago by Ben J. Ward <[email protected]>
Update README.md

github.com/BioJulia/Contributing - 0925a1ecebc5c1faca8cbbd450c88eb76501fa4e authored over 8 years ago by Ben J. Ward <[email protected]>
Update .travis.yml

github.com/BioJulia/Contributing - 1047fa56707cfd5d1221923a118f4451b5c1febd authored over 8 years ago by Ben J. Ward <[email protected]>
Update README.md

github.com/BioJulia/Contributing - 5bb683f86bbc04f397d7fda77f5eb3c0747cab67 authored over 8 years ago by Ben J. Ward <[email protected]>
Update README.md

github.com/BioJulia/Contributing - b13f540babd3105df48865aece690dc5253a1e1a authored over 8 years ago by Ben J. Ward <[email protected]>
Setting up contributing docs

github.com/BioJulia/Contributing - e754c759cfcfc9b25e74cbdafd14415f48df581d authored over 8 years ago by Ward9250 <[email protected]>
Update README.md

github.com/BioJulia/Contributing - eb1e00f3d8263748239399571f4a7a8d12017a36 authored over 8 years ago by Ben J. Ward <[email protected]>
Started adding contents to readme

github.com/BioJulia/Contributing - 902b559821886e2d3e48f9c5d06d67f173428d2e authored over 8 years ago by Ben J. Ward <[email protected]>
Added CONTRIBUTING.md

github.com/BioJulia/Contributing - f6b09f85f113d80f80d6dada84ad677e0acbe456 authored over 8 years ago by Ben J. Ward <[email protected]>