Revision history for App-Fasops

0.6.1 2019-01-25T15:45:18Z

    - Add `fasops vars`

0.6.0 2018-04-22T14:40:50Z

    - Add `fasops consensus`
    - Add poa_consensus() to Common.pm
    - Require Perl 5.18 as previous versions failed to find shared file
    - Better description() for all commands

0.5.16 2018-04-16T16:07:23Z

    - Add --simple to `fasops split`

0.5.15 2018-04-01T17:27:20Z

    - Fix maf2fas for reverse-complemented strands

0.5.14 2018-03-28T04:55:06Z

    - Update help
    - Release to CPAN

0.5.13 2018-03-24T08:15:55Z

    - Add `fasops mergecsv`, moved from egaz

0.5.12 2017-09-26T11:54:31Z

    - Add --nosingle, --noindel and --nocomplex to `fasops xlsx`

0.5.11 2016-12-19T19:56:59Z

    - Add `fasops stat`

0.5.10 2016-12-18T20:19:59Z

    - Remove dependency on List::MoreUtils
    - Move calc_ld() here

0.5.9 2016-12-17T18:06:32Z

    - Close $out_fh and $in_fh at once

0.5.8 2016-12-17T15:06:56Z

    - Add `fasops concat`

0.5.7 2016-12-17T04:57:15Z

    - Add `fasops check`

0.5.6 2016-12-16T10:30:10Z

    - Fix unknown SNPs
    - Add snp_ prefix to get_snps() and polarize_snp()

0.5.5 2016-12-16T02:52:25Z

    - Switch to Minilla
    - Improve test coverage
    - Without outgroups, consider indels occurred at target

0.5.4  2016-12-15 03:13:17 CST

    - Add `fasops xlsx`
    - show_defaults => 1 for all commands

0.5.3  2016-12-14 05:41:39 CST

    - Add get_snps(), polarize_snp()
    - Add get_indels(), polarize_indel()
    - Merge xt/11-refine.t to t/

0.5.2  2016-12-12 02:06:09 CST

    - Bring Perl 5.10 back

0.5.1  2016-12-09 21:51:44 CST

    - Drop Perl 5.10

0.5.0  2016-12-09 21:22:25 CST

    - Read from stdin

0.4.13  2016-07-07 22:32:08 CST

    - Add codecov badge

0.4.12  2016-06-30 16:35:03 CST

    - Speed up Common::read_fasta()

0.4.11  2016-06-26 03:46:35 CST

    - Fix command refine with --chop

0.4.10  2016-06-26 03:20:10 CST

    - Add --chop to command refine

0.4.9  2016-06-25 22:03:35 CST

    - Merge command multilinks into links

0.4.8  2016-06-21 06:11:14 CST

    - Add --best to command links
    - Command multilinks

0.4.7  2016-06-19 04:06:59 CST

    - App::RL::Common::decode_header() changed

0.4.6  2016-05-30 21:31:20 CST

    - Improve command refine following guides provided by Mario Roy.

0.4.5  2016-05-24 22:33:02 CST

    - Better prompts

0.4.4  2016-05-24 08:36:40 CST

    - Clean prompts

0.4.3  2016-05-21 19:47:58 CST

    - Parallelize command refine

0.4.2  2016-05-14 03:54:19 CST

    - Add `fasops join`
    - Add --required to command subset
    - Add --chr to command split

0.4.1  2016-05-12 22:44:56 CST

    - Add --length to command slice
    - Add --length and --trim to command covers

0.4.0  2016-05-12 03:40:52 CST

    - Specify versions of dependencies

0.3.14  2016-05-12 02:15:06 CST

    - Add `fasops slice`

0.3.13  2016-05-10 21:00:06 CST

    - `fasops refine --outgroup --quick`

0.3.12  2016-05-09 17:14:03 CST

    - Fix ref_pair_D

0.3.11  2016-05-08 20:02:14 CST

    - Move subs from AlignDB::Util

0.3.10  2016-05-07 17:30:24 CST

    - codecov

0.3.9  2016-05-07 14:15:37 CST

    - Export nothing. Remove duplicated functions
    - Add strict and warnings to every modules

0.3.8  2016-05-05 00:26:00 CST

    - move 11-refine.t to xt/

0.3.7  2016-05-04 01:27:07 CST

    - Add `fasops refine`

0.3.6  2016-04-08 15:06:47 CST

    - Require 5.10

0.3.5  2016-04-08 15:01:07 CST

    - Add travis-ci

0.3.4  2016-02-27 01:57:33 CST

    - `fasops replace` remove blocks

0.3.3  2016-02-07 11:43:35 CST

    - Fix warnings

0.3.2  2016-01-15 17:18:28 CST

    - A real Changes file

0.3.1  Thu Jan  7 02:12:28 2016

    - Add --size for `fasops axt2fas`

0.2.9  Mon Dec 28 17:02:40 2015

    - Common functions
    - Add `fasops links`
    - Add `fasops replace`

0.2.6  Mon Dec 28 09:31:35 2015

    - Change regex in App::Fasops::decode_header()

0.2.5  Sun Dec 27 21:11:13 2015

    - Tests for `fasops separate`

0.2.4  Fri Dec 25 02:22:41 2015

    - Rewrite axt2fas and maf2fas

0.2.3  Thu Dec 24 23:24:10 2015

    - Add `fasops covers`
    - split and names accept more than one files

0.2.2  2015-12-24 22:09:28 CST

    - Fix `fasops split`
    - Add `fasops separate`

0.2.1  2015-10-28 19:19:10 CST

    - Add license

0.2.0  2015-07-31 02:49:59 CST

    - Convert to Dist::Milla

0.1.0  2015-04-13 00:00:00 CST

    - Now useful
