Some scripts I thought might be useful to the whole group.
Most of it is still quite messy and/or rather quick'n'dirty.. so please go ahead and feel free to add/improve/document as much as you like!!
The only restriction here is: if you want to adjust the input/output of a function, either use optional arguments or create a new definition of the function. Otherwise existing workflows might get disrupted.
The following folders contain different python modules:
- alignment - dotter ported to python, detect overlapping sequences, plot large alignments
- contacts - plotting, network analysis on contact maps, different scoring methods, reformatting contacts to rosetta constraints, repeat filter, humble pconsc pipeline, sorting contacts
- hmmscan - repeat/multidomain analysis (quite messy)
- rosetta - fragment filtering, fix pdb numbering
- parsing - small parsers that have been useful in various occasions (most useful might be the pdb parser)