RTK 2.15

Tech hardened several processes

rtk2 2.14

rtk 2.14:
code clean ups and additional functionality to support advanced MG-TK functionalities, e.g. suppl coverages per sample. Additional sanity checks.

rtk v2.11.2

bug fix file detection

rtk v2.11.2

release to address conda build bug

rtk v2.11

minor update to support reading of .gz coverage files

rtk2 2.10

First release of rtk2

The main difference between rtk (https://github.com/hildebra/Rarefaction) and rtk2 is the focus of rtk2 on matrix operations required for MATATFILER (https://github.com/hildebra/MATAF3). This is implemented in C++ to 1) reduce memory usage 2) support flexible .gz in/output 3) higher speeds 4) multithreaded computations.
General functions include:

• calculate gene catalog matrix based on cd-hit/mmseqs gene clusters + .bam mappings
• rarefaction
• summing subsets of the matrix
• subselecting columns/rows
• calculating higher order matrixes based on functional/taxonomic annotations
• calculating taxa abundances based on median abundances of a set of marker genes and their abundance
• detect anticorrelated rows to decluter gene matrices
• normalize matrices of any size
• .. and other specialized tasks