Pygeno

Latest version: v2.0.0

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1.2.3

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* Added functions to retrieve the names of imported snps sets and genomes

* Added remote datawraps to the boostrap module that can be downloaded from pyGeno's website or any other location

* Added a field uniqueId to AgnosticSNPs

* Changed all latin datawrap names to english

* Removed datawrap for dbSNP GRCh37

1.2.2

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* Updated pypi package to include bootstrap datawraps

1.2.1

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* Fixed tests

1.2.0

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* BUG FIX: get()/iterGet() now works for SNPs and Indels

* BUG FIX: Default SNP filter used to return unwanted Nones for insertions

* BUG FIX: Added cast of lines to str in VCF and CasavaSNP parsers. Sometimes unicode caracters made the translation bug

* BUG FIX: Corrected a typo that caused find in Transcript to recursively die

* Added a new AgnosticSNP type of SNPs that can be easily made from the results of any snp caller. To make for the loss of support for casava by illumina. See SNP.AgnosticSNP for documentation

* pyGeno now comes with the murine reference genome GRCm38.78

* pyGeno now comes with the human reference genome GRCh38.78, GRCh37.75 is still shipped with pyGeno but might be in the upcoming versions

* pyGeno now comes with a datawrap for common dbSNPs human SNPs (SNP_dbSNP142_human_common_all.tar.gz)

* Added a dummy AgnosticSNP datawrap example for boostraping

* Changed the interface of the bootstrap module

* CSV Parser has now the ability to stream directly to a file

1.1.7

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* BUG FIX: looping through CSV lines now works

* Added tests for CSV

1.1.6

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* BUG FIX: find in BinarySequence could not find some subsequences at the tail of sequence

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