See commit history #41
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…nce based on input BAM files or Counts and a folder of preprocessed controls; Added support to detailing intervals within targets by using the score filed on the Bed file; LOTS AND LOTS OF code cleanup and removal of global variables that made the code difficult to understand and un on a pipeline mode; converted from using hard coded temporary files and used FILE::Temp perl module instead that deals automaticaly with temp file cleanup
…y on the set without requiring changing paths assuming they are run from within repo
…dded output of bedfiles with GFFtags metadata for IGV output
* Update .travis.yml * Update .travis.yml * Update Makefile.PL * Update .travis.yml * Update Makefile.PL * Update Makefile.PL * Update CoNVaDING.t
…ero target coverage bam/counts files
…ols additional depencency for amplicon coverage. For install it will check if the binaries for BedTools and Samtools are present.
… convading due opening and closing multiple times.
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Good luck on the validation! |
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https://github.com/molgenis/CoNVaDING_reload
Is a wrong link ... you pulled changes from my fork... I have no issue with keeping references to the original project ... but the CoNVaDING_reload is here:
https://github.com/duartemolha/CoNVaDING_reload
:)
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I was hoping for them to inspect the project but due to the large amount of changes they postponed it. One if the things missing in my repo is runnning a test on the data using the test data in the repo can you provide me the code for running it on the test data. This would be a nice addition. An additional thing to do is to add an error on reading 0 entry bed file cause the program reopens and reads the bedfile multiple times causing vague errors when you stream the bedfile into it. |
lib/CoNVaDING.pm
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| =head1 SEE ALSO | ||
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| https://github.com/molgenis/CoNVaDING_reload |
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| https://github.com/molgenis/CoNVaDING_reload | |
| https://github.com/molgenis/CoNVaDING |
lib/CoNVaDING.pm
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| GNU LESSER GENERAL PUBLIC LICENSE | ||
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| original version at https://github.com/molgenis/CoNVaDING_reload |
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| original version at https://github.com/molgenis/CoNVaDING_reload | |
| original version at https://github.com/molgenis/CoNVaDING |
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