v1.5.0
Major update to handle large (8M reference sequence!) library chemical mapping:
• Use of cmuts package as replacement for RNAFramework.
• Piloting use of minimap2 as potential replacement for bowtie2.
• Creation of ubr_util.py to enable some sharing of code and also user-facing util scripts like pre-indexing for bowtie2, necessary for runs with >1M reference sequences.
• Handling of HDF5 formats in ubr_split.py, ubr_run.py, ubr_merge.py, ubr_subdidivide.py scripts and last steps in MATLAB.
• Concatenation of ubr MATLAB workspaces, again to handle large datasets.
• Adding sam_to_mutdel.py to devel to pilot mutate-and-map & MOHCA-seq analysis of big libraries.