galantelab / sideRETRO / 288

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288 docs FIX: method.rst: Change Wikipedia to paper links push thiago-miller travis-ci pending completion   set done
287 docs CHANGE: footer.html: Style of button = normal push thiago-miller travis-ci pending completion   set done
286 docs ADD: footer.html: Extend RTD footer with COPYING message push thiago-miller travis-ci pending completion   set done
285 vcf FIX: utils.c (path_file): Remove extension at last dot push thiago-miller travis-ci pending completion   set done
284 docs ADD: method.rst: Orientation push thiago-miller travis-ci pending completion   set done
283 docs ADD: method.rst (Genotype): More details and image Explain in more details the genotype likelihoods, including the formula derivations and an illustrative image push thiago-miller travis-ci pending completion   set done
282 docs ADD: method.rst: Genotype push thiago-miller travis-ci pending completion   set done
281 vcf FIX: retrocopy.c: Same parental in overlapped rtc When two overlapped clusters share the same parental gene - maybe the edge points are reachable, not core points (DBSCAN) - it would be annotated as overlapped parentals. Now it will be annotated ... push Thiago L. A. Miller travis-ci pending completion   set done
279 docs ADD: method.rst: Abnormal alignments push thiago-miller travis-ci pending completion   set done
278 docs ADD: intro.rst: Host gene and make-vcf subcommand push thiago-miller travis-ci pending completion   set done
277 docs ADD: intro.rst: Host gene and make-vcf subcommand push thiago-miller travis-ci pending completion   set done
276 vcf REMOVE: genotype.c, merge_call.c: --crossing-reads push thiago-miller travis-ci pending completion   set done
275 vcf ADD: process_sample.c, merge_call.c: Final messages push thiago-miller travis-ci pending completion   set done
274 vcf ADD: db.c, genotype.c vcf.c: INFO DP2 Add reference and alternate depth counts to VCF's info push thiago-miller travis-ci pending completion   set done
273 vcf CHANGE: db.c, genotype.c, vcf.c: Genotype likelihood Implement the genotype estimation by using the likelihood approach as it is defined in Heng Li paper: "A statistical framework for SNP calling, mutation discovery, association mapping and popul... push thiago-miller travis-ci pending completion   set done