belowlab

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58 repositories

ibdmap-docs
Public
HTML
•0•0•0•0•Updated Mar 26, 2025Mar 26, 2025
drive
Public
A cli tool to analyze ibd sharing for a specific locus for multiple phenotypes
Python
•
Apache License 2.0
•1•0•0•0•Updated Mar 20, 2025Mar 20, 2025
Tractor
Public
Scripts for implementing the Tractor pipeline
Jupyter Notebook
•
MIT License
•9•0•0•0•Updated Mar 3, 2025Mar 3, 2025
Concordance-Analysis
Public
This analysis was performed to determine if there was concordance between our ancestries-specific GWAS summary statistics. Please see Shaw et al. 2021
Python
•
Apache License 2.0
•0•0•0•0•Updated Feb 17, 2025Feb 17, 2025
compadre
Public
IBD-based pedigree generation software, built on top of and maximizing utility from the tools PRIMUS and ERSA
python bioinformatics big-data genetics perl population-genetics relatedness identity-by-descent human-genetics pedigrees
Perl
•0•0•1•1•Updated Jan 20, 2025Jan 20, 2025
ldsc
Public
LD Score Regression (LDSC)
HTML
•
GNU General Public License v3.0
•349•12•0•0•Updated Dec 16, 2024Dec 16, 2024
CCHC_proteomics_QC
Public
QC of CCHC proteomics batch2
Jupyter Notebook
•
MIT License
•0•0•0•0•Updated Nov 12, 2024Nov 12, 2024
unified-simulations
Public
Updated simulation code packaged with all of its dependencies.
Perl
•0•0•0•0•Updated Nov 1, 2024Nov 1, 2024
bioindex-client
Public
Gets gene associations from Bioindex
Python
•0•0•0•0•Updated Oct 18, 2024Oct 18, 2024
compadre-website
Public
HTML
•0•0•0•0•Updated Oct 1, 2024Oct 1, 2024
rShiny_Bias
Public
R
•1•0•0•0•Updated Sep 19, 2024Sep 19, 2024
hap-ibd
Public
The hap-ibd program detects identity-by-descent segments in phased genotype data.
Java
•9•0•0•0•Updated Sep 16, 2024Sep 16, 2024
McBias
Public
McBias is an r package designed to help estimate the effects of bias found in large datasets of convenience
R
•1•0•0•0•Updated Sep 11, 2024Sep 11, 2024
CCHC_lipidomics
Public
Jupyter Notebook
•
MIT License
•0•0•0•1•Updated Aug 13, 2024Aug 13, 2024
PyVCF3
Public
A Variant Call Format reader for Python.
Python
•
Other
•223•0•0•0•Updated Aug 12, 2024Aug 12, 2024
staged-recipes
Public
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
Python
•
BSD 3-Clause "New" or "Revised" License
•5.2k•0•0•0•Updated Aug 9, 2024Aug 9, 2024
conda-forge-pinning-feedstock
Public
A conda-smithy repository for conda-forge-pinning.
Python
•
BSD 3-Clause "New" or "Revised" License
•528•0•0•0•Updated Jul 25, 2024Jul 25, 2024
docker-builds
Public
📦 🐳 Dockerfiles and documentation on tools for public health bioinformatics
Dockerfile
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GNU General Public License v3.0
•128•0•0•0•Updated Jul 18, 2024Jul 18, 2024
xcftools
Public
Set of tools for handling XCF files
C++
•3•0•0•0•Updated Jul 18, 2024Jul 18, 2024
shapeit5
Public
Segmented HAPlotype Estimation and Imputation Tool
C++
•
MIT License
•12•0•0•0•Updated Jul 18, 2024Jul 18, 2024
htslib
Public
C library for high-throughput sequencing data formats
C
•
Other
•446•0•0•0•Updated Jul 9, 2024Jul 9, 2024
CCHC_transcriptomics
Public
0•0•0•0•Updated May 2, 2024May 2, 2024
vcflib
Public
C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings
C++
•
MIT License
•223•0•0•0•Updated Apr 29, 2024Apr 29, 2024
eQTL_with_GTEx_pipeline
Public
Jupyter Notebook
•0•0•0•0•Updated Apr 22, 2024Apr 22, 2024
gargle
Public
Infrastructure for calling Google APIs from R, including auth
R
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Other
•35•0•0•0•Updated Apr 1, 2024Apr 1, 2024
peer
Public
A factor analysis package
C++
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Other
•43•0•0•1•Updated Mar 28, 2024Mar 28, 2024
r-peer
Public
A readonly copy of peer packaged as an github_install capable R package
C++
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Other
•0•0•0•0•Updated Mar 26, 2024Mar 26, 2024
patchwork
Public
The Composer of ggplots
R
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Other
•163•0•0•0•Updated Mar 25, 2024Mar 25, 2024
MetaXcan
Public
MetaXcan software and manuscript
Python
•
Other
•94•0•0•1•Updated Mar 10, 2024Mar 10, 2024
phaser
Public
phasing and Allele Specific Expression from RNA-seq
Python
•
GNU General Public License v3.0
•35•0•0•0•Updated Mar 8, 2024Mar 8, 2024