vanheeringen-lab/genomepy: [0.13.0] - 2022-06-02

Added genomepy search and genomepy genomes can now return the (unfiltered) absolute genome size with argument --size Changed changed caching backend to diskcache (thread safe) reduced the local cache size of NCBI (by about half) by only storing assembly summary columns actually used by genomepy [0.12.0] - 2022-03-28 Added genomepy.Annotation.lengths() to retrieve the gene/transcript lengths. genomepy.Annotation.from_attributes() can extract any sub-column that pesky attributes column Changed updated Boyle-lab blacklists genomepy.Annotation.genes() default changed from bed (commonly containing transcript names) to gtf (gene names) Fixed blacklists now work with GENCODE query_mygene no longer filters input. genomepy install with local provider now understands you want the annotation if you pass a path to an annotatio