Merged pull requests:
v3.17.0 (2018-02-19)
Merged pull requests:
v3.16.0 (2017-11-29)
Merged pull requests:
- ignore everything after a space in a FASTQ readname line #67 (andrewjpage)
- update LICENSE and AUTHORS #66 (ssjunnebo)
v3.15.0 (2017-02-10)
Merged pull requests:
v3.14.0 (2016-09-01)
Merged pull requests:
- Acgtn only #63 (martinghunt)
- fix spelling #62 (satta)
v3.13.0 (2016-08-12)
Merged pull requests:
- Random reads use float #61 (martinghunt)
- Add build status #60 (martinghunt)
- Add travis CI #59 (martinghunt)
v3.12.1 (2016-04-18)
Merged pull requests:
- Make __version__ work #58 (martinghunt)
v3.12.0 (2016-04-14)
Merged pull requests:
- Make gene from seq #57 (martinghunt)
v3.11.1 (2016-01-04)
Merged pull requests:
- Fix looks like gene #56 (martinghunt)
- fix spelling occurence -> occurrence #55 (satta)
v3.11.0 (2015-11-30)
Merged pull requests:
- Interleave add suffix #54 (martinghunt)
v3.10.1 (2015-11-16)
Merged pull requests:
- Qual char option to tiling BAM. Properly remove long_read_simulate #53 (martinghunt)
v3.10.0 (2015-10-16)
Merged pull requests:
- Remove numpy #51 (martinghunt)
v3.9.0 (2015-10-13)
Merged pull requests:
- Length offsets from fai #50 (martinghunt)
v3.8.0 (2015-09-25)
Merged pull requests:
- Stats from fai #49 (martinghunt)
v3.7.0 (2015-09-01)
Merged pull requests:
- Boulderio format #48 (martinghunt)
v3.6.1 (2015-08-18)
Merged pull requests:
- setup.py tweaks for numpy and nose #47 (martinghunt)
v3.6.0 (2015-07-28)
Merged pull requests:
- Check names unique #46 (martinghunt)
v.3.5.0 (2015-04-23)
Merged pull requests:
- Intervals add distance_to_point function #45 (martinghunt)
v3.4.0 (2015-04-20)
Merged pull requests:
- To fastg #44 (martinghunt)
v3.3.1 (2015-04-08)
Merged pull requests:
- updated version number #43 (nds)
- Minor fix in to_orfs_gff.py: parser.gff_out to parser.outfile #42 (nds)
v3.3.0 (2015-03-20)
Merged pull requests:
- Gene checks #41 (martinghunt)
v3.2.0 (2015-02-10)
Merged pull requests:
- Filter handle paired files #40 (martinghunt)
- Chunker option output one file #39 (martinghunt)
- Chunker option output one file #38 (martinghunt)
v3.0.1 (2015-02-02)
Merged pull requests:
- Rename to pyfastaq #37 (martinghunt)
- support genetic code 4 #36 (martinghunt)
- bug fix getting percent to keep #35 (martinghunt)
- Add test file tasks_test_mean_length.fa #34 (martinghunt)
- Add task mean_length #33 (martinghunt)
v2.0.0 (2015-01-09)
Merged pull requests:
- Update readme for v2.0.0 #32 (martinghunt)
- Change to one executable. Version 2.0.0 #31 (martinghunt)
- Add script fastaq_sort_by_size #30 (martinghunt)
- Add --suffix option to fastaq_enumerate_names #29 (martinghunt)
v1.7.0 (2014-12-02)
Merged pull requests:
- Caf to fastq #28 (martinghunt)
v1.6.0 (2014-11-03)
Merged pull requests:
- v1.6.0; remove fastaq_to_quasr_primers_file; add fastaq_sequence_trim --revcomp #27 (martinghunt)
- sync with martinghunt (no changes) #26 (martinghunt)
v1.5.0 (2014-10-14)
Merged pull requests:
1.5.0 (2014-10-10)
Merged pull requests:
- Expand nucleotides #24 (martinghunt)
v1.4.1 (2014-09-09)
Merged pull requests:
- fix for fastq input #23 (martinghunt)
v1.4.0 (2014-09-08)
Merged pull requests:
- Sequence trim #22 (martinghunt)
- Added AUTHORS file #21 (aslett1)
v1.3.0 (2014-09-03)
Merged pull requests:
- Simulate long reads #20 (martinghunt)
v1.2.0 (2014-07-15)
1.1.0 (2014-06-10)
v1.1.0 (2014-06-10)
Merged pull requests:
- Added task to_fasta_union; version bump #19 (martinghunt)
v1.0.0 (2014-04-09)
Merged pull requests:
- Version 1.0.0 #18 (martinghunt)
- Add script to find orfs #17 (martinghunt)
- Added methods for orf finding in sequences #16 (martinghunt)
- added option to invert filtering of sequences #15 (martinghunt)
- Bux fix to stop using fragments shorter than the read length #14 (martinghunt)
- added --fragments option to dump fasta file of fragments #13 (martinghunt)
- Added option to output numbered contig names instead of using coords #12 (martinghunt)
- Added option to output numbered contig names instead of using coords #11 (martinghunt)
- Added option to filter file from a file of sequence names #10 (martinghunt)
- added script fastaq_scaffolds_to_contigs #9 (martinghunt)
- Conversions to fasta - fix gff and add support for Phylip files made by Seaview #8 (martinghunt)
- Added support for reading gbk files #7 (martinghunt)
- Added option to omit sequences that are all Ns from fastaq_chunker #6 (martinghunt)
- Conversions to fasta #5 (martinghunt)
- New script fastaq_make_random_contigs; added funciotanlity to replace sections of bases within sequences #4 (martinghunt)
- Removed debugging print #3 (martinghunt)
- modified init file so that 'import fastaq' works; removed unecessary debug print statement #2 (martinghunt)
- Initial add of all files #1 (martinghunt)