Jared Simpson (@jts)
github

jts

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Top repositories

1

nanopolish

Signal-level algorithms for MinION data
C++
566
star
2

sga

de novo sequence assembler using string graphs
C++
235
star
3

ncov-tools

Small collection of tools for performing quality control on coronavirus sequencing data and genomes
Python
47
star
4

methylation-analysis

R
43
star
5

nanocorrect

Experimental pipeline for correcting nanopore reads
Jupyter Notebook
39
star
6

assembly_accuracy

tools for assessing the accuracy of genome assemblies
Python
34
star
7

nanopore-paper-analysis

Code for nanopore paper
Python
33
star
8

dbgfm

FM-index representation of a de Bruijn graph
C
26
star
9

bam2fastq

Simple convertor from bam to FASTQ
C++
25
star
10

bri

Bam Read Index - Extract alignments from a bam file by readname
C
23
star
11

smrest

Tumour-only somatic mutation calling using long reads
Rust
22
star
12

nanopore-rna-analysis

Python
14
star
13

mbtools

Rust
12
star
14

ncov-watch

Tools for detecting mutations of interest in SARS-CoV-2 sequencing results
Python
6
star
15

csc2417

Course webpage for CSC2417
CSS
4
star
16

gfademo

Small demonstration of the GFA format
C++
4
star
17

sga-extra

Extra tools and utilities for sga
Perl
4
star
18

bwt-benchmark

Framework to benchmark BWT construction algorithms
Perl
2
star
19

nanopore_cfdna

Groovy
2
star
20

ncov-random-scripts

Python
2
star
21

tpdb

Python
2
star
22

misc

Miscellaenous source code
C++
1
star
23

modbam_example

1
star