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github.com/BioJulia/Kmers.jl

In development: Kmer types and methods for julia
https://github.com/BioJulia/Kmers.jl

Fix iterator constructor and other failing tests (#32)

* Fix iterator constructor and other failing tests

* Update test/access.jl

Co-authored-by:...

0bdf3a8a7817e1bbdc9811bff2c56b1dbaa0c086 authored over 1 year ago by cjprybol <[email protected]>
Add docstrings and update docs (#30)

* Add docstrings and update docs

* remove random seeding for jldocttest

5dd8f8ff122e538f200582561defc836a3272046 authored almost 2 years ago by cjprybol <[email protected]>
Add reverse translation (#20)

Add reverse translation

f7a1328a744e30840326943bcace9aa6590aba3c authored over 2 years ago by Jakob Nybo Nissen <[email protected]>
Add Unsafe trait object (#27)

The `Unsafe` trait object allows access to unsafe methods.

cb76fbee736f74e5157a449745a584123042aa8e authored over 2 years ago by Jakob Nybo Nissen <[email protected]>
Add translation of kmers (#24)

* Add translation of kmers

* Allow translation of DNA

* Support alternative_start

* Opt...

320439bd99bb1304c7faa55bd11429daaaa64e40 authored over 2 years ago by Jakob Nybo Nissen <[email protected]>
Resolve ambiguity error Kmer() (#26)

* Add constructors

* Kmer(nts...) should have minimum one nt

Co-authored-by: Sabrina Jaye ...

619f5ad6e10ae1db4440b9923f5c54b964c3d487 authored over 2 years ago by Jakob Nybo Nissen <[email protected]>
Add constructors (#25)

0e5d10d477ed824d6a44bbdc5bcafb5158190410 authored over 2 years ago by Jakob Nybo Nissen <[email protected]>
Fix minor bugs (#22)

a3348abcce0d55137d116d89b1ecdf0cd336dfc8 authored over 2 years ago by Jakob Nybo Nissen <[email protected]>
Kmer Slicing (#16)

5ab500b725f89521e23d57541ca8658124b3338d authored over 2 years ago by Sabrina Jaye Ward <[email protected]>
Fixup docs

f8ea398015fa384728c611b900d639ba46f73036 authored over 2 years ago by Ben J. Ward <[email protected]>
Fixup iterator constructors

014b50323670956bae61bdff42bd62c1a63a5920 authored over 2 years ago by Ben J. Ward <[email protected]>
Update documentation

fb14c7adaf51196766a87c1c9ca35f41a5ece93c authored over 2 years ago by Ben J. Ward <[email protected]>
Enable SpacedKmers to mix nucleic acid alphabets

d0341e03debcf723e8bc595fc2ec79eb54f6a71c authored over 2 years ago by Ben J. Ward <[email protected]>
Enable SpacedCanonicalKmers to mix nucleic acid alphabets

5867c3695289e77472ef84b4eaa53ab8ed326b2c authored over 2 years ago by Ben J. Ward <[email protected]>
Add SpacedCanonicalKmers iterator

33ac95a26b6ee1368b7f945dd340b7d7701dd3de authored over 2 years ago by Ben J. Ward <[email protected]>
Add 4 to 2 bit nuc iteration for EveryCanonicalKmer

9b90ad7970375f666aa81a96d0af5fda59c549d9 authored over 2 years ago by Ben J. Ward <[email protected]>
Add Skipping behaviour to EveryKmer

91da92eb7a62761ddbc5473700a81f01bad7639d authored over 2 years ago by Ben J. Ward <[email protected]>
Add EveryCanonicalKmer

bf0a61fd0376584a14afdc60b4870e62b3fa4826 authored over 2 years ago by Ben J. Ward <[email protected]>
Add SpacedKmers

1d0575fb057efc8cbbf6e8f283d677834e016ca3 authored over 2 years ago by Ben J. Ward <[email protected]>
Add EveryKmer

bddf7fa2abbf39683c07dfeb3a5de8f99ac5f611 authored over 2 years ago by Ben J. Ward <[email protected]>
Add test for canonical method

1756818d46a895d98848165b073423492adba0f2 authored almost 3 years ago by Ben J. Ward <[email protected]>
Optimise canonical function

ff15beb24cbbb747bfdf4d252decff3b47c761d7 authored almost 3 years ago by Ben J. Ward <[email protected]>
Predicates docs

39ea4bd57b9f5e368fefca854c26ab279a11c5ce authored almost 3 years ago by Ben J. Ward <[email protected]>
Update Kmer construction

f339c80151202acdf70c21051d8d334a868916ec authored almost 3 years ago by Ben J. Ward <[email protected]>
Remove backers from README.md

6d0dc293be65956fe483e2fc961e7f3e5b7586ad authored about 3 years ago by Ben J. Ward <[email protected]>
Get tests passing

621d32c5bc7796cb572ffe7c088c54f9e5a77b6f authored about 3 years ago by Ben J. Ward <[email protected]>
Update some project files

31a9a48123d38220e0930b00ed3aaa3a4bb104ee authored about 3 years ago by Ben J. Ward <[email protected]>
Merge remote-tracking branch 'origin/compathelper/new_version/2021-10-13-00-17-41-749-03151575129'

4f8e8c97d6107e3f8fff089f921590b1a12d68e6 authored about 3 years ago by Ben J. Ward <[email protected]>
CompatHelper: add new compat entry for BioSequences at version 2, (keep existing compat)

ed4c50325933886f5550432d9e3974cfd4e1d16c authored about 3 years ago by CompatHelper Julia <[email protected]>
import LongSequence into tests

53e7eae0c26c6078e61eafa607c9e56f38c99d8d authored about 3 years ago by Ben J. Ward <[email protected]>
Fix typo

7e7215fcd6d5c66a50f546517cc1967165f45dc6 authored about 3 years ago by Ben J. Ward <[email protected]>
reexport alphabets

a3dd98ab81b7565f490dbf330de1bf07e653de3f authored about 3 years ago by Ben J. Ward <[email protected]>
Add random functios for testing

aa407055daeb6fb3a07d3183eee715550129ba27 authored about 3 years ago by Ben J. Ward <[email protected]>
Require BioSequences branch v3

b0480d20ae28f1fe9f88eef03ffc0524f2ec3845 authored about 3 years ago by Ben J. Ward <[email protected]>
Add construction manual page

8a34add2f24fe156cc5edf894246cfbae0fff55e authored about 3 years ago by Ben J. Ward <[email protected]>
Add index.md

76bcda75a48c9ec3ff913f022d631658b0754b4c authored about 3 years ago by Ben J. Ward <[email protected]>
Fix docs folder

680105bc5b90a08e5fe62e99eb22314ebdbe2de3 authored about 3 years ago by Ben J. Ward <[email protected]>
Added some docs files

5b42af5c33d59e9a91c67b9276a28660d83b74a1 authored about 3 years ago by Ben J. Ward <[email protected]>
Update readme

5bf6ec69311a96baf0bf5104eccfe4950406fa69 authored about 3 years ago by Ben J. Ward <[email protected]>
Merge code for Kmer type from BioSequences to this package (#8)

9ebd425a3aea067f4e172a702b84020c5549c087 authored about 3 years ago by Ben J. Ward <[email protected]>
added kmer types and aliases. (#2)

(part 1 of many)

e4eecdd0b4aae9153975737ec862b91c666b397c authored over 7 years ago by Ben J. Ward <[email protected]>
Kmers.jl regenerated files.

license: MIT
authors: Ben J. Ward, Kevin Murray
years: 2017
user: kdmur...

c8e2a7c8f538ac56f7a6ec609d1993e7f833fd17 authored over 7 years ago by Kevin Murray <[email protected]>
Update README.md

c70d5687bef136c49b93bef1c07e71f6045fcc38 authored over 7 years ago by Ben J. Ward <[email protected]>
Correct username in README.md

b5713baea348a50d0a99eb5519c489bdb7c63096 authored over 7 years ago by Kevin Murray <[email protected]>
Update README.md

aecdd9416e228a211a5af408aa5d987c0bffe88d authored over 7 years ago by Ben J. Ward <[email protected]>
Create README.md

cef8a7a9a08ae5ae5b17a2a5e76d0398ff54fedc authored over 7 years ago by Ben J. Ward <[email protected]>
Initial commit

48cb7e518e9ea69fd367c5fef35ec7e902e9169d authored over 7 years ago by Ben J. Ward <[email protected]>