TahcoRoll: An Efficient Approach for Signature Profiling in Genomic Data through Vairable-Length k-mers

git clone https://github.com/chelseaju/TahcoRoll.git

TahcoRoll is implemented in C++14, and requires compiler g++ 4.9 and above. Please run the following commands to compile the executables:

cd src
make

Binary files are also provided:

tahcoroll, tahcoload

Simulated datasets can be downloaded here: https://figshare.com/s/6f02feaf89c4ff6ddc9e

Test data is provided under /test_data

profiling a set of variable-length k-mers:

./bin/tahcoroll test_data/small_01200000_sortedAlphabet.txt test_data/sample.fq

tahcoload is used to evaluate the loading time of different k-mer sets. To run this script:

./bin/tahcoload test_data/small_01200000_sortedAlphabet.txt