Lindsay Clark's repositories
R_genetics_conv
R functions for conversion of genetic data formats
cpsc499_fall_2018
Course materials for R programming and bioinformatics
TASSELGBS_combine
Pipeline to combine SNP datasets from multiple TASSEL-GBS databases
16S-rDNA-dada2-pipeline
dada2 Nextflow pipeline
adegenet
adegenet: a R package for the multivariate analysis of genetic markers
bioc-intro
Bioconductor data science introduction
covid19champaign
Little wrapper function to plot daily COVID-19 cases
EpiNano
Detection of RNA modifications from Oxford Nanopore direct RNA sequencing reads (Liu*, Begik* et al., Nature Comm 2019)
fibertools-rs
Tools for fiberseq data written in rust.
GAPIT3
Genome Association Predict Integrate Tools
GWASpoly
GWAS software that can handle autopolyploids
H3ABionet-SOPs
Standard operating procedures for H3ABionet data processing and analyses
h3agwas
GWAS Pipeline for H3Africa
IsoformSwitchAnalyzeR
An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
labmeeting
Demonstration repository for lab meeting
lvclark.github.io
My website
lvclark.r-universe.dev
List of packages for R-universe
minimap2
A versatile pairwise aligner for genomic and spliced nucleotide sequences
Miscanthus
Miscanthus traits
paralog_id
Exploration and testing of methods to identify paralogs in GBS data
polyRADtutorials
Supplementary tutorials for polyRAD
pyseer
SEER, reimplemented in python 🐍🔮
r-novice-gapminder
Introduction to R for non-programmers using gapminder data.
R_Python_video_series
Files for video tutorial series
swc-forklesson
Repository for Software Carpentry classes to fork and submit pull requests to