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@matsengrp @tskit-dev @popsim-consortium

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  • Resume-CV Public

    A place to be a *little* self-centered.

    TeX Updated Aug 13, 2024
  • IDP Public

    A place for Individual Development Plan

    TeX Updated Jul 24, 2023
  • test repo for submodule learning

    Updated Mar 10, 2023
  • A modified ncov nextrain build to include dms model predictions'

    Python MIT License Updated Feb 3, 2023
  • automatic/analytical differentiation benchmark

    HTML Updated Oct 26, 2022
  • dotfiles Public

    Forked from victoriadrake/dotfiles

    Dotfiles and automagic set-up scripts for Linux flavours

    Shell Updated Aug 1, 2022
  • partis Public

    Forked from psathyrella/partis

    B- and T-cell receptor sequence annotation, simulation, clonal family and germline inference, and affinity prediction

    Python GNU General Public License v3.0 Updated Jan 13, 2022
  • Python Updated Sep 28, 2021
  • ringo Public

    blah

    Updated Jul 30, 2021
  • Shell Updated Apr 6, 2021
  • A place for my three internship reports to live.

    TeX Updated Dec 1, 2020
  • A small example of how to start building a nextflow pipeline.

    Nextflow Updated Oct 20, 2020
  • olmsted Public

    Forked from matsengrp/olmsted

    B-cell repertoire and clonal family tree explorer

    JavaScript GNU Affero General Public License v3.0 Updated Jul 11, 2020
  • The source files for a spring 2020 BGMP term paper focused on phip-seq analysis pipeline

    HTML Updated Jun 22, 2020
  • This repository will hold a notebook which will walk through and explain some tskit `TreeSequence` basics

    Jupyter Notebook Updated May 28, 2020
  • a python module for calculating microbial correlation matrices that account for habitat filtering effects

    Python MIT License Updated Apr 12, 2020
  • motif-mark Public

    A simple CLI to draw motif plots given a fasta and motif file.

    Python Updated Mar 11, 2020
  • This repository will contain the necessary scripts and computational benchmarks for the assembly of the King Crab.

    Shell 1 Updated Feb 26, 2020
  • Contains code to simualte spots on background noise, and the convolutional neural network framework to train on those images.

    Jupyter Notebook 4 Updated Jan 24, 2020
  • ReLERNN Public

    Forked from kr-colab/ReLERNN

    Recombination Landscape Estimation using Recurrent Neural Networks

    Python MIT License Updated Jan 20, 2020
  • PopSim consortium manuscript

    TeX Updated Dec 22, 2019
  • A library of standard simulation models for msprime

    Python 1 GNU General Public License v3.0 Updated Dec 21, 2019
  • Analysis of inference methods on standard population models using Snakemake

    Python MIT License Updated Dec 21, 2019
  • LaTeX Source for Stickleback Paper

    TeX 1 1 Updated Dec 17, 2019
  • Deduper Public

    Forked from Leslie-C/Deduper
    Python Updated Dec 6, 2019
  • This repository will hold code and other documents for doing image analysis (deep learning) to identify specific neurons.

    Python 1 Updated Nov 14, 2019
  • tsencode Public

    This is the starting code for endcoding an msprime TreeSequence Object into a 3D array for ML and visualization purposes

    Python 4 2 MIT License Updated Nov 11, 2019
  • demultiplexing-jgallowa07 created by GitHub Classroom

    Python Updated Nov 5, 2019
  • IDP-template Public template

    Forked from eharkins/IDP-template

    individual career development plan

    Updated Sep 14, 2019
  • msprime Public

    Forked from tskit-dev/msprime

    A reimplementation of Hudson's classical ms simulator for modern data sets.

    C GNU General Public License v3.0 Updated May 20, 2019