k-seq: a package for kinetic measurements with high throughput sequencing

Welcome to the documentation for k-seq, a python package to analyze the data from k-Seq (a kinetic assay using high throughput sequencing). It contains the function to process the FASTQ reads to a count table, preprocess count table, quantify the extend of reaction, and fitting the data into kinetic model with bootstrapping to quantify the uncertainty.

Please check Installation to set up the environment to run k-seq package. For quick start, check Getting Started Tutorial.

Contact

For any question and issues: issue report or Yuning Shen (yuningshen@ucsb.edu)