klkeys Goto Github PK

biofreelancers

Freelance bioinformaticians directory

biosimulator.jl

A stochastic simulation framework in Julia.

cellranger-count

A Nextflow wrapper for cellranger count, flavored with nf-core principles.

cellranger-vdj

A Nextflow wrapper for cellranger vdj, flavored with nf-core principles.

delete-tweets

Delete tweets from your timeline.

exchangeleastsq.jl

fista.jl

Accelerated soft- and firm-thresholding algorithms for sparse regression

gala2-roh

Computational pipeline for GALA II project analyzing runs of homozygosity

geuvadis-predixcan

Pipeline to train and analyze PrediXcan prediction weights using GEUVADIS EUR and YRI populations

ggchrisg

Plotting with glee with our favorite Chris G

iht.jl

A Julia module that implements the (normalized) iterative hard thresholding algorithm(IHT) of Blumensath and Davies. IHT performs feature selection akin to LASSO- or MCP-penalized regression using a greedy selection approach.

mendelbase.jl

MendelBase contains the base functions of OpenMendel.

mendelgwas.jl

This package performs standard Genome-wide Association Studies.

mendellocationscores.jl

This analysis option maps a trait via the method of Location Scores, i.e., multipoint linkage analysis.

modules

Repository to host tool-specific module files for the Nextflow DSL2 community!

multiqc

Aggregate results from bioinformatics analyses across many samples into a single report.

multiqc_testdata

Test data for MultiQC. See https://github.com/ewels/MultiQC

omp.jl

A Julia module to perform orthogonal matching pursuit

plink.jl

Julia module to handle PLINK BED files

proxdist

Code for the numerical experiments from manuscripts for the proximal distance algorithm

regressiontools.jl

Various numerical subroutines to facilitate regression

rnaseq

RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

sage-geuvadis-predixcan

Analysis of transcriptome imputation using paired genotype-expression data from SAGE and GEUVADIS

sage-lungfunction

Analysis and plotting code for SAGE lung function studies

sage-predixcan

Analysis of TWAS in SAGE

snparrays.jl

Compressed storage for SNP data

test-datasets

Test data to be used for automated testing with the nf-core pipelines