bguo068/tskit-rust Fork of tskit-dev/tskit-rust

Rust bindings for the tskit library

Language: C - Size: 1.24 MB - Last synced: about 8 hours ago - Pushed: about 9 hours ago - Stars: 0 - Forks: 0

bguo068/ibdutils

A python package to facilitate identity-by-descent-based analysis

Language: Python - Size: 35.7 MB - Last synced: 2 days ago - Pushed: 3 days ago - Stars: 1 - Forks: 0

bguo068/bcf-reader

BCF reader in pure Rust (https://docs.rs/bcf_reader/latest/bcf_reader/)

Language: Rust - Size: 558 KB - Last synced: 5 days ago - Pushed: about 1 month ago - Stars: 1 - Forks: 0

bguo068/bmibdcaller_empirical

a Nextflow pipeline to benchmark IBD callers with empirical data by comparing IBD-based estimates with expected patterns of Plasmodium falciparum populations

Language: Python - Size: 49.7 MB - Last synced: 28 days ago - Pushed: 28 days ago - Stars: 0 - Forks: 0

bguo068/bmibdcaller_simulations

a Nextflow pipeline to benchmark different IBD detection methods and optimize IBD caller-specific parameters by simulating Plasmodium falciparum-like genomes and using true IBD

Language: Python - Size: 42.5 MB - Last synced: 28 days ago - Pushed: 28 days ago - Stars: 0 - Forks: 0

bguo068/snp_call_nf

Nextflow pipeline for plasmodium SNP calling

Language: Nextflow - Size: 105 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 3 - Forks: 2

bguo068/ishare

a Rust crate designed to facilitate the analysis of rare-variant sharing and identity-by-descent (IBD) sharing.

Language: Rust - Size: 328 KB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 2 - Forks: 0

bguo068/testdata

Language: Shell - Size: 98 MB - Last synced: 7 months ago - Pushed: 7 months ago - Stars: 0 - Forks: 0

bguo068/posseleff_empirical

Nextflow pipeline for analyzing empirical WGS data for the effect of positive selection on IBD-based inference

Language: Nextflow - Size: 2.15 MB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 1 - Forks: 0

bguo068/posseleff_simulations

Nextflow pipeline to assess the impact of positive selection on Identity by Descent (IBD)-based inferences, utilizing population genetic simulations and true IBD inferences.

Language: Python - Size: 66.7 MB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 1 - Forks: 0

bguo068/tskibd

Calculate IBD segments from tree sequence using tskit C API

Language: C++ - Size: 7.24 MB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 1 - Forks: 0

bguo068/tskit Fork of tskit-dev/tskit

Analyse, create and manipulate tree sequences.

Size: 15.5 MB - Last synced: 10 months ago - Pushed: about 2 years ago - Stars: 0 - Forks: 0

bguo068/snakemake-wrappers Fork of snakemake/snakemake-wrappers

This is the development home of the Snakemake wrapper repository, see

Size: 147 MB - Last synced: 10 months ago - Pushed: almost 3 years ago - Stars: 0 - Forks: 0

bguo068/msprime Fork of tskit-dev/msprime

Simulate genealogical trees and genomic sequence data using population genetic models

Size: 14.1 MB - Last synced: 10 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

bguo068/octopus Fork of luntergroup/octopus

Bayesian haplotype-based mutation calling

Size: 135 MB - Last synced: 10 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

bguo068/vcfmask

Mask genotype calls when allele depth per sample is too small

Language: Rust - Size: 690 KB - Last synced: 10 months ago - Pushed: about 1 year ago - Stars: 0 - Forks: 0

bguo068/WGAbed Fork of henryjuho/WGAbed

A package for handling whole genome alignments by Pádraic Corcoran and Henry Barton

Size: 95.7 KB - Last synced: 10 months ago - Pushed: over 4 years ago - Stars: 0 - Forks: 0

bguo068/The-Elements-of-Statistical-Learning-Python-Notebooks Fork of empathy87/The-Elements-of-Statistical-Learning-Python-Notebooks

A series of Python Jupyter notebooks that help you better understand "The Elements of Statistical Learning" book

Size: 57.6 MB - Last synced: 10 months ago - Pushed: almost 3 years ago - Stars: 0 - Forks: 1

bguo068/nextflow-gotchas Fork of Midnighter/nextflow-gotchas

A collection of unexpected challenges and learnings with nextflow and nf-core.

Size: 504 KB - Last synced: 10 months ago - Pushed: almost 2 years ago - Stars: 0 - Forks: 0

bguo068/polars_python_rust_example

Allow conversion of polars dataframes and series between rust and python (based on https://github.com/pola-rs/polars/tree/master/examples/python_rust_compiled_function)

Language: Rust - Size: 3.91 KB - Last synced: 10 months ago - Pushed: about 1 year ago - Stars: 0 - Forks: 0