CHANGES IN VERSION 1.6.0 ------------------------- o No new changes CHANGES IN VERSION 1.4.07 ------------------------- o Fix bug when exporting bsseq objects from methrix objects created using Methyldackel pipeline. Issue: #26 CHANGES IN VERSION 1.4.05 ------------------------- o rotate x axis labels by 45 degrees in report o update `methrix_pca()` screeplot o added CITATION CHANGES IN VERSION 1.4.00 (Bioconductor version) ------------------------- o read_bedgraphs() supports bedgraphs files from "Bismark_cov", "MethylDackel", "MethylcTools", "BisSNP", "BSseeker2_CGmap" o write_bedgraphs() supports output to multiBed and metilene file formats o write_bigwigs() exports methrix object as bigWigs CHANGES IN VERSION 1.2.10 ------------------------- o BSgenome ref build parsing error. Issue: #24 o Show which CpGs are missing when loading bedGraphs. Issue: #22 o Faster HDF5 processing. PR: #21 o include SeqStyle option in Manual write_bedgraphs() function. PE: #20 o added the argument for SeqlevelsStyle and trackline in bedgraph. PR: #19 CHANGES IN VERSION 1.2.06 ------------------------- o Fix BioC warnings. CHANGES IN VERSION 1.2.05 ------------------------- o Methrix plot typo fix. Issue: #20 CHANGES IN VERSION 1.0.05 ------------------------- o Bugfixes in methrix report. Issue: #12 o Bugfixes in the coverge_filter function --> the output methrix is now sorted o Bugfixes in the subset_methrix function --> works on unsorted methrix o Bugfixes in read_bedgraphs function --> when all fields are present, parse_source_idx did not return M and U columns o Added group option to coverage_filter o Added prefix option to methrix_report o Added keep option to snp_removal o minor changes in plotting functions CHANGES IN VERSION 0.99.0 ------------------------- o Submission to Bioconductor