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  • 2D_FIR_distribution Public

    Code to calculate 5ʹ and 3ʹ distances to the nearest gene

    R GNU General Public License v3.0 Updated May 12, 2022

  • 3D_contact_distribution Public

    Code to calculate 3D contact distributions for subsets of genes

    R GNU General Public License v3.0 Updated Apr 21, 2022

  • 203.328 Public

    Module 6 Lab Resources – Genome Analysis 203.328

    GNU General Public License v3.0 Updated Jul 5, 2021

  • update Public

    Automate Linux updates

    GNU General Public License v3.0 Updated Jun 14, 2021

  • summarize_contigs Public

    Characterize contigs in a fasta file, including telomere information

    Python GNU General Public License v3.0 Updated Jun 14, 2021

  • fasta_select Public

    Extract specified sequences from a fasta file

    Python GNU General Public License v3.0 Updated Jun 14, 2021

  • filter_fasta Public

    Filter fasta sequences by size

    Perl GNU General Public License v3.0 Updated Jun 14, 2021

  • seqStats Public

    Calculate sequence statistics of fasta files

    Perl GNU General Public License v3.0 Updated Jun 11, 2021

  • hybridRNAsim Public

    Simulating 'neutral' gene expression patterns in hybrids and their progenitors

    R GNU General Public License v3.0 Updated Aug 7, 2020

  • gene_ordering Public

    Code to simulate random gene loss in the yeast genome

    R GNU General Public License v3.0 Updated Apr 2, 2020

  • lesson-example Public

    Forked from carpentries/lesson-example

    Example lesson using The Carpentries lesson template.

    HTML Other Updated May 15, 2019

  • filtFst Public

    filtFst calculates Fst, a measure of population differentiation due to genetic structure

    C 1 GNU General Public License v3.0 Updated Dec 30, 2018

  • monte Public

    Statistical significance of high and low mutation rates

    R GNU General Public License v3.0 Updated Dec 30, 2018

  • microsat Public

    Microsat simulates the evolution of linked and unlinked microsatellites using the coalescent.

    C GNU General Public License v3.0 Updated Dec 30, 2018

  • mapcount Public

    Counts read hits against a reference gene set

    Perl GNU General Public License v3.0 Updated Dec 30, 2018

  • recomb Public

    The recomb package simulates and summarizes genetic datasets with recombination rates that change over time.

    C GNU General Public License v3.0 Updated Dec 30, 2018

  • mstree Public

    Calculates TMRCA and the minimum clade proportion for coalescent genealogies

    Perl GNU General Public License v3.0 Updated Dec 30, 2018

  • msrho Public

    Calculates the rho statistic for coalescent genealogies

    Perl GNU General Public License v3.0 Updated Dec 30, 2018

  • IMgc Public

    Finds the largest non-recombining block in a DNA alignment

    Perl GNU General Public License v3.0 Updated Dec 30, 2018

  • hapmatch Public

    Determines lineages with given ingroup and outgroup frequencies in coalescent genealogies

    C++ GNU General Public License v3.0 Updated Dec 30, 2018

  • gst_prime Public

    Implementation of a standardized genetic differentiation measure

    R GNU General Public License v3.0 Updated Dec 30, 2018

  • frequency_diff Public

    Calculate probability of allele frequency differences by resampling

    R 1 GNU General Public License v3.0 Updated Dec 30, 2018

  • drifter Public

    Simulate genetic drift and sampling error in population genetic samples

    Perl GNU General Public License v3.0 Updated Dec 30, 2018

  • admixture_estimator Public

    R GNU General Public License v3.0 Updated Dec 30, 2018

  • adwave Public

    Wavelet analysis of genomic data from admixed populations

    R GNU General Public License v3.0 Updated Dec 28, 2018

  • bali_lattice Public

    Javascript Bali lattice model

    JavaScript GNU General Public License v3.0 Updated Sep 17, 2018

  • models Public

    Models for website hosting

    NetLogo GNU General Public License v3.0 Updated Aug 17, 2018

  • asiamodel Public

    Testing site for msprime coalescent models of Asian demography

    Python GNU General Public License v3.0 Updated Jan 25, 2018