Science and medicine

Canadian Centre for Computational Genomics

Analytical solutions for Next-Generation Sequencing data

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Organization website

Participation history

4 GSoC years

2020 2019 2018 2016

2020

5 projects

Official year page

Ingesting the Canadian Common CV

The Canadian Common CV (CCV) is a tool that allows Canadian researchers to input their resume in a standardized format. It is used by multiple...

Code Project page

DevOps for GenPipes

DevOps for GenPipes would create an automatic deployment of the GenPipes project in the cloud using Terraform. It would support multiple cloud...

Code Project page

Large-scale modeling of genetic data

The objective of the problem arises from the reconstruction of gene genealogies problem - from a given genotypes of sequence data from contemporary...

Code Project page

Development of a Long-read Nanopore RNA-seq pipeline in GenPipes

The majority of contemporary genomics and transcriptomics research is carried out using short-read technology such as the output of Illumina...

Code Project page

Automatic update of the C3G software stack catalog

GenPipes is an important tool by C3G. GenPipes contains a suite of different software. The software contained in the suite is continuously updated...

Code Project page

2019

4 projects

Official year page

Flowchart creator for GenPipes

Genpipes is a set of software pipelines designed for genomic analysis. There are currently seven different pipelines and three more are in the...

Code Project page

MiCM Project Match

The main objective of McGill initiative in Computational Medicine (MiCM) is to deliver inter-disciplinary research programs and empower the use of...

Code Project page

Batchtools for Compute Canada

In this project we will work on the new CC systems (Beluga, Graham, Cedar, Niagara) and potentially mp2 trying to automate the setup of things like...

Code Project page

Human history and genome evolution project proposal

There has been a recent surge in the development of open-source computational methods for simulating human evolution and analyzing human genome data....

Code Project page

2018

3 projects

Official year page

Providing Public Accessibility for SegAnnDB

This project will expand the public accessibility of SegAnnDB as well as work on providing integrations with the UCSC Genome Browser and Galaxy.

Code Project page

Efficient frequency spectrum computation over large sample sizes

The goal of the summer project is to revise the current implementation so that it can compute large frequency spectra efficiently. As a result,...

Code Project page

Population genetics simulation and modeling using reinforcement learning

The problem of population genetics can be viewed as a stochastic process. The aim of the project is to understand the reverse transition dynamics of...

Code Project page

2016

3 projects

Official year page

Integrate structural variants calls in the tumor_pair pipeline from MUGQIC Pipeline

The goal of this project is to implement additional steps in the tumor_pair pipeline in order to integrate Structural Variant detection in the...

Code Project page

Improved Tools for Genetic Diversity Modelling

Interpreting genomic data largely relies on simulation software. One important family of software simulates population-level diversity over the...

Code Project page

Improving SegAnnDB genomic segmentation app

SegAnnDb (Segmentation Annotation Database) is a web app, which helps researchers analyze a chromosome profile for copy number alterations in genes....

Code Project page