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alan

Alignment viewer for linux terminal

conference_posters

Digital resources for posters presented at conferences

effectr

An R package to call oomycete effectors

elections_2018

Some analysis of the 2018 elections. Focus is on Oregon.

fasta2nuccomp

Summarize the contents of FASTA files.

fastq-processing

Scripts that are useful in either a de novo or reference-based variant calling workflow

fastq2highqualvcf

Scripts to process reads from FASTQ to VCF including filters

gatk

Official code repository for GATK versions 4 and up

ggtree

:christmas_tree:Visualization and annotation of phylogenetic trees

glossary

An R packge to add and link to a glossary in Rmarkdown-based websites

isecrete

Process outputs from various secretome prediction tools

learning-python

mllr

R package to wrap many common population genetics analyses into pipelines, beginning from raw VCF file

mypackage

nsf-grfp

My complete application for the NSF GRFP

orthofinder

Phylogenetic orthology inference for comparative genomics

osu-salaries

parse salary .pdf into pandas df to analyze salary by department type

pico_galaxy

Galaxy tools and wrappers for sequence analysis

poppr

🌶 An R package for genetic analysis of populations with mixed (clonal/sexual) reproduction

ragtag

Tools for fast and flexible genome assembly scaffolding and improvement

rnaseq_pipelines

Scripts for RNAseq analysis using SGE clusters, bash and R.

tidytuesday_bpp

BPP and BPP alums meet for Tidy Tuesday

using_r_with_databases

Standardized Environment for R-studio Server.

variant-calling

Call variants de novo or using a reference

vcfr

Tools to work with variant call format files

vcfr_documentation

Documentation for vcfR