rlorigro/receptor_detector

Solution to sequence labeling problem

receptor_detector

Solution to sequence labeling problem

Installation

git clone https://github.com/rlorigro/receptor_detector.git
cd receptor_detector/
mkdir build
cd build/
cmake ..
make -j 8

Usage

Options:
  -h,--help                   Print this help message and exit
  -o,--output_directory TEXT REQUIRED
                              Path to directory where output should be written
  -r,--referece TEXT REQUIRED Path to tsv containing receptor and linker sequences
  -i,--input_reads TEXT REQUIRED
                              Path to tsv containing reads to be split and labeled
  -t,--n_threads UINT REQUIRED
                              Maximum number of threads to use

For example:

./classify_receptors \
-r /home/ryan/data/broad_app/linker_and_receptor_segments.tsv \
-i /home/ryan/data/broad_app/unlabelled_reads.tsv \
-o test/ \
-t 8

Results are dumped to files in the output directory.

Example output

Final results

Intermediate information