BC Cancer Canada's Michael Smith Genome Sciences Centre

BC Cancer Canada's Michael Smith Genome Sciences Centre's repositories

abyss

:microscope: Assemble large genomes using short reads

Language:C++NOASSERTION301 25 324

NanoSim

Nanopore sequence read simulator

Language:PythonNOASSERTION215 16 158

ntHash

Fast hash function for DNA/RNA sequences

Language:C++MIT91 21 17

arcs

🌈Scaffold genome sequence assemblies using linked or long read sequencing data

Language:C++GPL-3.090 25 105

ntJoin

🔗Genome assembly scaffolder using minimizer graphs

Language:PythonGPL-3.080 5 44

biobloom

Create Bloom filters for a given reference and then use it to categorize sequences

Language:C++GPL-3.075 14 61

ntEdit

✏️ Genome assembly polishing & SNV detection

Language:C++GPL-3.062 14 17

ntSynt

Detecting multi-genome synteny using minimizer graph mapping

Language:PythonGPL-3.061 5 1

straglr

Tandem repeat expansion detection or genotyping from long-read alignments

Language:PythonNOASSERTION47 6 34

goldrush

Linear-time de novo Long Read Assembler

Language:C++GPL-3.030 10 43

ntLink

Minimizer-based assembly scaffolding and mapping using long reads

Language:PythonGPL-3.028 9 11

btllib

Bioinformatics Technology Lab common code library

Language:C++NOASSERTION20 15 47

ntEmbd

Deep learning embedding for nucleotide sequences

Language:PythonNOASSERTION16 70

ntHits

Identifying repeats in high-throughput sequencing data

Language:C++MIT15 12 7

physlr

:chains: Construct a Physical Map from Linked Reads

Language:PythonGPL-3.015 11 17

pori_graphkb_client

Front-end web client for the GraphKB project

Language:TypeScriptGPL-3.09 6 25

pori_ipr_api

Integrated Pipeline Reports (IPR) API, the reporting API as part of the PORI platform

Language:JavaScript8 40

pori_ipr_client

Integrated Pipeline Reports (IPR) client. The web interface for the reporting application as part of PORI

Language:TypeScriptGPL-3.08 50

pori_graphkb_python

Python adapter package for querying the GraphKB API

Language:PythonGPL-3.07 6 3

pori_graphkb_loader

The Loaders for GraphKB. Imports content from external sources via the GraphKB REST API

Language:JavaScriptGPL-3.06 6 33

pori_ipr_python

Python adapter for generating reports uploaded to IPR using the PORI platform

Language:PythonGPL-3.06 8 2

mtGrasp

mtGrasp: Snakemake pipeline for de novo reference-grade mitochondrial genome assembly and standardization

Language:PythonGPL-3.0500

pori_graphkb_api

REST API for the GraphKB project

Language:JavaScriptGPL-3.04 5 7

goldpolish

GoldPolish (aka GoldRush-Edit) is a long read sequence polisher used in the GoldRush assembler

Language:C++GPL-3.03 9 5

ntRoot

🌳 Human ancestry inference from genomic data

Language:PythonGPL-3.02 40

amnatate

Draft genome completeness assessment using hash based approach

Language:C++GPL-3.0100

btl

:microscope: Bioinformatics Technology Lab, Genome Sciences Centre

Language:HTML1 15 14

long_read_pog

Analysis code for a cohort of Nanopore-sequenced tumours.

Language:HTMLMIT1 3 2

Stash

This repository contains the implementation for the Stash data structure

Language:C++GPL-3.01 110

tAMPer

tAMPer: antimicrobial peptides toxicity prediction

Language:Jupyter NotebookGPL-3.01 30