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Daniel Jones [Sun, 9 Dec 2012 03:41:17 +0000 (19:41 -0800)]
Rename hash to hash_table.
Daniel Jones [Tue, 9 Oct 2012 22:53:12 +0000 (15:53 -0700)]
Buffer size option.
Daniel Jones [Tue, 9 Oct 2012 22:41:08 +0000 (15:41 -0700)]
Reverse sort option.
Daniel Jones [Tue, 9 Oct 2012 22:20:04 +0000 (15:20 -0700)]
An essentially functional fastq-sort program.
Daniel Jones [Tue, 9 Oct 2012 17:37:19 +0000 (10:37 -0700)]
WIP on a fastq-sort program.
Daniel Jones [Tue, 9 Oct 2012 07:06:12 +0000 (00:06 -0700)]
Fix the weird output behavior of fastq-sample.
Daniel Jones [Tue, 9 Oct 2012 06:20:25 +0000 (23:20 -0700)]
Much simpler faster code for parsing fastq files.
Daniel Jones [Mon, 12 Dec 2011 20:10:55 +0000 (12:10 -0800)]
An option for fastq-grep to output non-matching entries to a file (e.g. for splitting a fastq file)
Daniel Jones [Tue, 22 Nov 2011 22:50:32 +0000 (14:50 -0800)]
Add the offset, not subtract.
Daniel Jones [Tue, 22 Nov 2011 22:48:08 +0000 (14:48 -0800)]
Remove an extraneous printf.
Daniel Jones [Tue, 22 Nov 2011 22:46:51 +0000 (14:46 -0800)]
fastq-qualadj: Prevent getopt from choking on negative number arguments.
Daniel Jones [Tue, 22 Nov 2011 20:40:21 +0000 (12:40 -0800)]
Added a program to adjust quality scores by a fixed offset.
Daniel Jones [Fri, 18 Nov 2011 20:26:43 +0000 (12:26 -0800)]
README clarifications.
Daniel Jones [Fri, 18 Nov 2011 19:10:00 +0000 (11:10 -0800)]
Fix inverted match option in fastq-grep.
Daniel Jones [Wed, 26 Oct 2011 19:24:06 +0000 (12:24 -0700)]
fastq-sample: options to set the rng seed and output the complement of the sample
Daniel Jones [Tue, 25 Oct 2011 20:45:51 +0000 (13:45 -0700)]
A program to randomly sample reads from a fastq file.
Daniel Jones [Tue, 25 Oct 2011 00:47:34 +0000 (17:47 -0700)]
An option to let fastq-grep match read ids instead of sequence.
Daniel Jones [Fri, 8 Jul 2011 21:59:52 +0000 (14:59 -0700)]
a few fixes, and a program to tabulate quality scores
Daniel Jones [Thu, 7 Apr 2011 20:02:37 +0000 (13:02 -0700)]
man pages
Daniel Jones [Fri, 18 Mar 2011 19:12:45 +0000 (12:12 -0700)]
a little documentation
Daniel Jones [Thu, 17 Mar 2011 13:05:30 +0000 (06:05 -0700)]
(limited) support for fasta
Daniel Jones [Thu, 17 Mar 2011 12:53:12 +0000 (05:53 -0700)]
a program to output a nonredundant list of readss
Daniel Caleb Jones [Thu, 3 Mar 2011 20:33:04 +0000 (12:33 -0800)]
a couple fixes to smith-waterman
Daniel Caleb Jones [Thu, 3 Mar 2011 20:06:42 +0000 (12:06 -0800)]
reimplemented smith-waterman
Daniel Caleb Jones [Thu, 3 Mar 2011 03:47:33 +0000 (19:47 -0800)]
a new and improved parser
Daniel Jones [Sat, 26 Feb 2011 20:00:04 +0000 (12:00 -0800)]
a program to print smith-waterman scores against a query sequence
quentin jones [Fri, 25 Feb 2011 23:36:01 +0000 (15:36 -0800)]
autotool script
quentin jones [Fri, 25 Feb 2011 23:33:03 +0000 (15:33 -0800)]
a program to tally kmer frequencies from fastq files
quentin jones [Fri, 25 Feb 2011 22:48:23 +0000 (14:48 -0800)]
fastq-grep works
quentin jones [Fri, 25 Feb 2011 20:46:17 +0000 (12:46 -0800)]
initial work on some useful fastq tools