cjain7

Chirag Jain's repositories

parconnect_SCC16

Computes connectivity in large graphs. To be used for SCC submission in SC16.

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MetaMaps

Long-read metagenomic analysis

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astarix-fork

Fast and Optimal Sequence-to-Graph Aligner

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bwa

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

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canu

A single molecule sequence assembler for genomes large and small.

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chef

Chef Repository for SCC Georgia Tech

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genome-ann

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greek-symbols

Greek symbols plugin for IntelliJ IDEA

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hifiasm-modified

Hifiasm: a haplotype-resolved assembler for accurate Hifi reads

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libdivsufsort

A lightweight suffix-sorting library

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math-as-code

a cheat-sheet for mathematical notation in code form

MIT000

minigraph-test

Proof-of-concept seq-to-graph mapper and graph generator

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mutatrix

genome simulation across a population with zeta-distributed allele frequency, snps, insertions, deletions, and multi-nucleotide polymorphisms

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mxx

C++11 Message Passing

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plfit

Fitting power-law distributions to empirical data, according to the method of Clauset, Shalizi and Newman

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seqtk

Toolkit for processing sequences in FASTA/Q formats

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SVanalyzer

Tools for the analysis of structural variation in genomes

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