NimbleGen/bioinformatics issues and pull requests

#154 - Mem opt

Pull Request - State: closed - Opened by heilmank about 7 years ago

#153 - New release of HSQUTILS

Issue - State: open - Opened by AlisonKennedy over 7 years ago - 1 comment

#152 - adding changes for v1_1

Pull Request - State: closed - Opened by heilmank over 7 years ago

#151 - There is no `build` directory

Issue - State: closed - Opened by bpow almost 8 years ago - 1 comment

#150 - adding fxnality to giff parser

Pull Request - State: closed - Opened by heilmank over 8 years ago

#149 - adding files for gel analyzer, genome viewer and pete utils

Pull Request - State: closed - Opened by heilmank over 8 years ago - 1 comment

#148 - this is a test issue

Issue - State: closed - Opened by dstover1688 over 8 years ago - 1 comment

#147 - adding pete design tool

Pull Request - State: closed - Opened by heilmank over 8 years ago - 1 comment

#146 - various changes for pete and 5p

Pull Request - State: closed - Opened by heilmank over 8 years ago - 1 comment

#145 - updating references to domain name refactor

Pull Request - State: closed - Opened by heilmank over 8 years ago - 1 comment

#144 - adding requested change to probe details report

Pull Request - State: closed - Opened by heilmank over 8 years ago - 1 comment

#143 - Domain name refactor

Pull Request - State: closed - Opened by heilmank over 8 years ago - 1 comment

#142 - String sequence

Pull Request - State: closed - Opened by heilmank over 8 years ago

#141 - cleaning up unused code and updating the picard library

Pull Request - State: closed - Opened by heilmank over 8 years ago - 1 comment

#140 - various changes with autotestplan and 5p design

Pull Request - State: closed - Opened by heilmank over 8 years ago - 1 comment

#139 - adding NdfUtil for parsing control probes

Pull Request - State: closed - Opened by heilmank almost 9 years ago - 1 comment

#138 - String sequence

Pull Request - State: closed - Opened by heilmank almost 9 years ago - 1 comment

#137 - fixing issue with startFolder parameter

Pull Request - State: closed - Opened by heilmank almost 9 years ago - 1 comment

#136 - Tp9

Pull Request - State: closed - Opened by heilmank almost 9 years ago - 1 comment

#135 - deleting files

Pull Request - State: closed - Opened by heilmank almost 9 years ago - 1 comment

#134 - Md5

Pull Request - State: closed - Opened by heilmank almost 9 years ago

#133 - changing copyright date to 2016

Pull Request - State: closed - Opened by heilmank about 9 years ago

#132 - adding license information

Pull Request - State: closed - Opened by heilmank about 9 years ago

#131 - adding copyright header

Pull Request - State: closed - Opened by heilmank about 9 years ago

#130 - changing version and fixing imports

Pull Request - State: closed - Opened by heilmank about 9 years ago

#129 - putting in fix for md5 issue

Pull Request - State: closed - Opened by heilmank about 9 years ago

#128 - Current

Pull Request - State: closed - Opened by heilmank over 9 years ago

#127 - various changes for version 8

Pull Request - State: closed - Opened by heilmank over 9 years ago

#126 - Current

Pull Request - State: closed - Opened by heilmank almost 10 years ago

#125 - Current

Pull Request - State: closed - Opened by heilmank almost 10 years ago

#124 - fixing command line parsing

Pull Request - State: closed - Opened by heilmank almost 10 years ago

#123 - Current

Pull Request - State: closed - Opened by heilmank almost 10 years ago

#122 - adding get random colors

Pull Request - State: closed - Opened by heilmank almost 10 years ago

#121 - nightly changes

Pull Request - State: closed - Opened by heilmank almost 10 years ago

#114 - removing another column from the probe report

Pull Request - State: closed - Opened by heilmank over 10 years ago - 1 comment

#113 - adding changes to main reports

Pull Request - State: closed - Opened by heilmank over 10 years ago - 2 comments

#112 - adding internal reports option

Pull Request - State: closed - Opened by heilmank over 10 years ago - 1 comment

#110 - Time

Pull Request - State: closed - Opened by heilmank over 10 years ago - 1 comment

#109 - Frozen

Pull Request - State: closed - Opened by heilmank over 10 years ago - 1 comment

#108 - adding changes for read classifier

Pull Request - State: closed - Opened by heilmank over 10 years ago - 1 comment

#103 - Greg features

Pull Request - State: closed - Opened by heilmank over 10 years ago - 2 comments

#101 - Merge

Pull Request - State: closed - Opened by heilmank over 10 years ago

#100 - Greg

Pull Request - State: closed - Opened by heilmank over 10 years ago - 1 comment

#99 - code for logging and parsing uids from probe file

Pull Request - State: closed - Opened by heilmank over 10 years ago

#95 - adding fixes so the bam alignments correctly align with the genome accor...

Pull Request - State: closed - Opened by heilmank over 10 years ago - 1 comment

#94 - adding fixes for handling long reads

Pull Request - State: closed - Opened by heilmank over 10 years ago - 1 comment

#93 - Sequence

Pull Request - State: closed - Opened by heilmank almost 11 years ago

#92 - Tab reader

Pull Request - State: closed - Opened by heilmank almost 11 years ago

#91 - fixing issue with command line parser

Pull Request - State: closed - Opened by heilmank almost 11 years ago

#90 - adding argument existance fxns to command line parser

Pull Request - State: closed - Opened by heilmank almost 11 years ago

#89 - adding fixes for a read group bug and ligation uid bug

Pull Request - State: closed - Opened by heilmank almost 11 years ago

#88 - changing writer to buffered writer to increase speed on larger files

Pull Request - State: closed - Opened by heilmank almost 11 years ago

#87 - moved tabdelimittedwriter to common and removed logback files from commo...

Pull Request - State: closed - Opened by heilmank almost 11 years ago

#86 - Version change

Pull Request - State: closed - Opened by heilmank almost 11 years ago

#85 - fixing issue with reads from different runs and summary details not matc...

Pull Request - State: closed - Opened by heilmank almost 11 years ago - 1 comment

#84 - adding strict read to probe mapping option

Pull Request - State: closed - Opened by heilmank almost 11 years ago

#83 - fixing bugs and adding filter

Pull Request - State: closed - Opened by heilmank almost 11 years ago

#82 - Bug fixes

Pull Request - State: closed - Opened by heilmank almost 11 years ago

#81 - split uid changes

Pull Request - State: closed - Opened by heilmank almost 11 years ago - 1 comment

#79 - removing output fastq option and adding mark duplicates

Pull Request - State: closed - Opened by heilmank about 11 years ago

#78 - Pulling out nucleotide composition data into its own report

Pull Request - State: closed - Opened by heilmank about 11 years ago

#77 - moving util classes and changing scope of methods and classes

Pull Request - State: closed - Opened by heilmank about 11 years ago

#76 - Removing and moving unused code

Pull Request - State: closed - Opened by heilmank about 11 years ago

#75 - removing module image exporter from pom file

Pull Request - State: closed - Opened by heilmank about 11 years ago

#74 - removing code that has been moved to the internal bioinformatics reposit...

Pull Request - State: closed - Opened by heilmank about 11 years ago - 1 comment

#73 - changing all references to bam header to include all input bam sequence ...

Pull Request - State: closed - Opened by heilmank about 11 years ago - 1 comment

#72 - Gatk fix

Pull Request - State: closed - Opened by heilmank about 11 years ago - 1 comment

#71 - removing dependency based on licensing and adding code to replace its fx...

Pull Request - State: closed - Opened by heilmank about 11 years ago - 1 comment

#70 - changes associated with Kens tool

Pull Request - State: closed - Opened by heilmank about 11 years ago - 1 comment

#69 - miscellaneous changes in src/test/java for generating various test repor...

Pull Request - State: closed - Opened by heilmank about 11 years ago - 1 comment

#68 - adding changes to fix stress test failure

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#67 - adding columns to summary report

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#66 - fixing bugs

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#65 - added reportmanager to simplify code

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#64 - Heatseq 36

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#63 - Heatseq 44

Pull Request - State: closed - Opened by heilmank over 11 years ago

#62 - removing redundant columns from uid_quality and probe_details reports

Pull Request - State: closed - Opened by heilmank over 11 years ago

#61 - Heatseq 46

Pull Request - State: closed - Opened by heilmank over 11 years ago

#60 - Heatseq 40

Pull Request - State: closed - Opened by heilmank over 11 years ago

#59 - Heatseq 45

Pull Request - State: closed - Opened by heilmank over 11 years ago

#58 - Bug fix - ProbePlotter was previously moved but the original file was not deleted.

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#57 - adding info to summary and processing report and fixing bug

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#56 - checking in fixes for various issues with the reports

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#54 - adding a summary report

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#53 - Bug28

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#52 - putting in fixes for bugs 30 and 31

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#51 - adding probe id as an attribute in the outputted bam file

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#50 - modifying probe info header names

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#49 - adding bug fix for read name parsing

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#44 - adding method that returns iterator to delimited file parser

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#39 - Imageexporter pom fixes

Pull Request - State: closed - Opened by heilmank over 11 years ago

#30 - adding changes for processing variable length uids

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#29 - fixing bug with stress test

Pull Request - State: closed - Opened by heilmank over 11 years ago

#28 - adding changes that were wiped out by merge

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#25 - adding some util changes and prefix to output file

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#14 - Test setup2

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#13 - Test setup

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#10 - adding unit tests and fxnality to command line package

Pull Request - State: closed - Opened by heilmank over 11 years ago - 1 comment

#9 - adding unit tests and removing code that is not needed.

Pull Request - State: closed - Opened by heilmank over 11 years ago

#8 - fixing find bugs issues

Pull Request - State: closed - Opened by heilmank over 11 years ago

GitHub / NimbleGen/bioinformatics issues and pull requests