@COMBINE-lab

COMBINE-lab

COMputational BIology and Network Evolution lab

  • An efficient index for the colored, compacted, de Bruijn graph

    C++ 32 7 GPL-3.0 Updated Aug 14, 2018
  • semi-reference-based short read compression

    C++ 10 3 GPL-3.0 Updated Aug 14, 2018
  • 🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using lightweight alignments

    C++ 218 71 GPL-3.0 Updated Aug 12, 2018
  • Rapid sensitive and accurate read mapping via quasi-mapping

    C++ 67 18 GPL-3.0 Updated Aug 8, 2018
  • An attempt at rustification of the CQF (https://github.com/splatlab/cqf)

    C 2 BSD-3-Clause Updated Aug 4, 2018
  • Assortment of random, potentially-useful utility functions and classes.

    C++ BSD-3-Clause Updated Aug 2, 2018
  • SeqLib

    Forked from walaj/SeqLib

    C++ htslib/bwa-mem/fermi interface for interrogating sequence data

    C++ 12 Updated Jul 13, 2018
  • A simple pipeline using CGAT framework for benchmarking and analysis.

    Python 3 GPL-3.0 Updated Jul 5, 2018
  • Prepare Sailfish and Salmon output for downstream analysis

    R 23 5 Updated Jun 13, 2018
  • C 1 635 Updated Jun 7, 2018
  • Jupyter Notebook Updated May 20, 2018
  • Python 4 1 BSD-2-Clause Updated May 3, 2018
  • bwa

    Forked from lh3/bwa

    Burrow-Wheeler Aligner for pairwise alignment between DNA sequences

    C 314 GPL-3.0 Updated Apr 25, 2018
  • C++ 11 5 Updated Feb 18, 2018
  • Useful tools for working with Salmon output

    C++ 8 1 BSD-3-Clause Updated Feb 13, 2018
  • GitHub clone of SVN repo svn://svn.code.sf.net/p/staden/code/io_lib (cloned by http://svn2github.com/)

    C 2 Updated Feb 11, 2018
  • C++ 1 1 Updated Feb 5, 2018
  • Jupyter Notebook 1 BSD-2-Clause Updated Feb 4, 2018
  • MultiQC

    Forked from ewels/MultiQC

    Aggregate results from bioinformatics analyses across many samples into a single report.

    Python 200 GPL-3.0 Updated Dec 22, 2017
  • spdlog

    Forked from gabime/spdlog

    Super fast C++ logging library.

    C++ 2 905 MIT Updated Dec 20, 2017
  • many things

    Python BSD-2-Clause Updated Sep 22, 2017
  • Get the "signature" of fasta files

    Python 1 BSD-2-Clause Updated Aug 31, 2017
  • Methods for the automated discovery of hierarchically-structured chromatin domains

    C++ 2 1 Updated Aug 18, 2017
  • Improved multi-sample transcript abundance estimates using adaptive priors

    C++ 18 2 BSD-2-Clause Updated Jul 23, 2017
  • Accurate, Lightweight Clustering of de novo Transcriptomes using Fragment Equivalence Classes

    Python 24 5 Updated Jul 17, 2017
  • A succinct colored dBG representation

    C++ 12 BSD-3-Clause Updated Jun 19, 2017
  • Polyester simulation

    Python 1 BSD-2-Clause Updated May 23, 2017
  • Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.

    C++ 11 GPL-3.0 Updated May 19, 2017
  • Sux

    Forked from foudrer/Sux

    Implementing Succinct Data Structures from Sebastiano Vigna(http://sux.di.unimi.it)

    C++ 3 LGPL-3.0 Updated Apr 10, 2017
  • Example of how continuous analysis can be used for RNA-Seq differential expression.

    R 3 6 BSD-3-Clause Updated Mar 9, 2017
  • 0

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