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Test zCall Pull Request #4

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@jigold jigold commented Apr 8, 2013

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Iain Bancarz added 30 commits January 25, 2013 12:29
Added notes on Git repository structure
70a441d
Initial commit of src directory
27d90f8
Changed permissions to make executable
6986df8
Initial commit
ae317bc
Added Makefile
d23ae68
Extensive refactoring, additional help text, added config file
14d0cc4
Renamed calibration.py
1aaea67
Renamed to calibrationFromEGT.py
f739be3
Validate arguments from argparse module and run on multiple zscores
8e7b68b
Added 'config' command-line option
ffc73d4
Initial commit
8cf9340
Install etc directory and .ini files
2a60177
Exit if no PREFIX given for installation
67a7a64
Minor edits to git section
9b2659a
force recompiling of any .pyc files on install
0300002
Initial commit of new classes to evaluate concordance
93e4531
Renamed and updated
3cc8878
Change verbose output, and skip existing threshold files
428fb59
Extensive refactoring for concordance evaluation
ad50190
Initial commit
f6f7e7e
Added headers to output file, --force option, reflect argument change…
11d7916 
…s to other classes
bug fix in concordance counts; return inclusion rates only once
23d9e81
Add --force option to ensure overwrite
9c815a5
Added gain statistic
e28d7ee
Edited comments
64de34f
Added 'best z' calculation; minor refactoring
065e2f5
Added pydoc strings
f1d19d6
Removed findConcordance, merged functionality into findMultipleConcor…
494acdd 
…dances; edited comments
fixed email address
4891c70
Moved to new 'legacy' directory
c3e179d
Iain Bancarz and others added 30 commits October 2, 2013 10:21
Catch ZeroDivisionError in normalization
7f37407
Changed error message
80a5e3d
Merge pull request #9 from iainrb/devel
d40b479 
Changes for release 0.4.3
Initial commit
9076921
Implement normalization to Illumina TOP strand
feac2aa
Added markdown for headings
6ad27ca
Renamed
a971efc
Added markdown
73f844e
Renamed
fa29b1b
Add tearDown() to delete test output; update checksums for non-normal…
892686f 
…ized manifest
Remove manifest normalization
a491d25
Deleted
5f42e34
Add subsection on strand normalization
ee232d1
Edited comments
8b4c3bb
Minor edits to README docs
45f61cf
fixed typos
4b9bee5
Fixed typos and list of scripts
49e3dfb
Merge pull request #10 from iainrb/devel
3dba83e 
Updated documentation
Announce deletion of output directory to stdout
3bf9556
Bugfix; correct number of no-calls for padding to integer number of b…
b1ed935 
…ytes
Updated locations of test data
4c3bd19
Added test of zCallComplete.py with alternate manifest
a6dfcf9
Initial commit
8c6d7c3
Merge pull request #11 from iainrb/devel
9876197 
Bugfix and additional tests for Plink output error
Merge pull request #13 from wtsi-npg/release-0.4.4
24ea91b 
Release 0.4.4
Updated test data and changed data location
65eda2e
Change placeholder value from -9 to 0 in Plink .fam output
41b33ae
Allow user to configure representation of missing data in Plink .fam …
f4166eb 
…output
Merge pull request #14 from iainrb/devel
19fa128 
Updated test data and Plink .fam output
Merge pull request #16 from wtsi-npg/release-0.4.5
3bba1bb 
Release 0.4.5
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@jigold