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biopet.biopet
Commits
3e956c9c9aa18b8285d4ba35cd00ad3eed70920d
Switch branch/tag
biopet-biopet
07 Mar, 2015
8 commits
Use correct sickle value retrieval
· 3e956c9c
bow
authored
Mar 07, 2015
3e956c9c
Add all fastqc plots to report
· 41883883
bow
authored
Mar 07, 2015
41883883
Add FastQC parser to PDF report template generator
· 3c2f3b45
bow
authored
Mar 07, 2015
3c2f3b45
Update report template to output clipped adapter name correctly
· 06e9a56a
bow
authored
Mar 07, 2015
06e9a56a
Update Picard metrics parsing to better handle nonexistent files
· 7dabaeca
bow
authored
Mar 07, 2015
7dabaeca
Add fallback job when md5sum job fails
· 24d23ba1
bow
authored
Mar 07, 2015
24d23ba1
Update Sickle wrapper to parse sickle single-end output
· 24b411f6
bow
authored
Mar 07, 2015
24b411f6
Catch possible exceptions when parsing table for heatmap plotting
· 075878b1
bow
authored
Mar 07, 2015
075878b1
06 Mar, 2015
16 commits
Use correct types for JSON output in cutadapt summary
· 83e4d44a
bow
authored
Mar 06, 2015
83e4d44a
Initial report
· fb8373ab
bow
authored
Mar 06, 2015
fb8373ab
Fix missing adapter name in flexiprep summary
· 66bf4e3f
bow
authored
Mar 06, 2015
66bf4e3f
Add version to gentrap summary output
· 2fb27c1b
bow
authored
Mar 06, 2015
2fb27c1b
Formatting updates
· 86171153
bow
authored
Mar 06, 2015
86171153
Fix sickle wrapper bug causing by incorrect flag output
· 6827c6b5
bow
authored
Mar 06, 2015
6827c6b5
Update test for fragments_per_gene mode
· 219ead09
bow
authored
Mar 06, 2015
219ead09
Further trim down tests
· 1c953ac1
bow
authored
Mar 06, 2015
1c953ac1
Add convenience methods for creating sample configs
· 2d0050ea
bow
authored
Mar 06, 2015
2d0050ea
Trim down general test to test for expMeasure and strandProtocol combinations
· c7cd5499
bow
authored
Mar 06, 2015
c7cd5499
Add more config options to test in GentrapTest
· 76ef30d0
bow
authored
Mar 06, 2015
76ef30d0
Fix duplicate value on valid cufflinks measures
· a207d0b6
bow
authored
Mar 06, 2015
a207d0b6
Remove addAllJobs from CufflinksProducer
· 10873179
bow
authored
Mar 06, 2015
10873179
Refactor Cufflinks jobs into its own trait
· acdacee9
bow
authored
Mar 06, 2015
acdacee9
Add general heatmap plotting fallback when error is encountered
· dbc78f53
bow
authored
Mar 06, 2015
dbc78f53
Rename for consistency
· e5dd66c8
bow
authored
Mar 06, 2015
e5dd66c8
05 Mar, 2015
16 commits
Update formatting
· 51031007
bow
authored
Mar 05, 2015
51031007
Initial update for GentrapTest
· 497eef6f
bow
authored
Mar 05, 2015
497eef6f
Avoid NullPointerException when checking for R2 in Gentrap
· e714e45d
bow
authored
Mar 05, 2015
e714e45d
Put all expression table outputs into a single directory
· 40eeaa44
bow
authored
Mar 05, 2015
40eeaa44
Add heatmap plot jobs for all output
· 393af584
bow
authored
Mar 05, 2015
393af584
Create fallback plot when data points for heatmap is not enough
· 307af384
bow
authored
Mar 05, 2015
307af384
Use scalaz's implicit option for boolean
· 67ae06c1
bow
authored
Mar 05, 2015
67ae06c1
Initial heat map plotting
· e7764348
bow
authored
Mar 05, 2015
e7764348
Update heatmap wrapper
· 87396efb
bow
authored
Mar 05, 2015
87396efb
Update heatmap plot sizes
· 4f78c3f1
bow
authored
Mar 05, 2015
4f78c3f1
Update heatmap plotting script
· 897fbf4e
bow
authored
Mar 05, 2015
897fbf4e
Merge branch 'develop' into feature-gentrap
· 7eec6949
bow
authored
Mar 05, 2015
7eec6949
Add job for writing PDF report
· 6d78e827
bow
authored
Mar 05, 2015
6d78e827
Merge branch 'patch-executable_check' into 'develop'
· 8fbf2803
bow
authored
Mar 05, 2015
Patch executable check See merge request !114
8fbf2803
Possible to not convert executable to CanonicalPath
· 000989d7
Peter van 't Hof
authored
Mar 05, 2015
000989d7
Possible to not convert executable to CanonicalPath
· 043874a8
Peter van 't Hof
authored
Mar 05, 2015
043874a8
