agmcfarland

AAVengeRTest

testing scripts for AAVengeR

BarcodeFlow

Visualize how barcodes change in abundance between samples

Bartender

Find and characterize barcoded viruses

BEiGUIDE

Base editing detection and quantification extension for iGUIDE

biopython_workshop

Biopython: Work with biological sequence data in Python

cookiecutter-data-science

A logical, reasonably standardized, but flexible project structure for doing and sharing data science work. Modified for bioinformatics.

FluPipeline

Automatically find the best reference for influenza NGS read mapping and find intra-host variants

GeneGrouper

CLI tool for finding gene clusters in many genomes and placing them in discrete groups based on gene content similarity.

InvestigateIntegrations

Workflows to investigate integration site distributions in R

r_phylogenetics_worshop

Using ggtree to build phylogenetic trees

agmcfarland/r_phylogenetics_worshop

Using ggtree to build phylogenetic trees

agmcfarland/GeneGrouper

CLI tool for finding gene clusters in many genomes and placing them in discrete groups based on gene content similarity.

agmcfarland/biopython_workshop

Biopython: Work with biological sequence data in Python

agmcfarland/FluPipeline

Automatically find the best reference for influenza NGS read mapping and find intra-host variants

agmcfarland/AAVengeRTest

testing scripts for AAVengeR

agmcfarland/BarcodeFlow

Visualize how barcodes change in abundance between samples

agmcfarland/Bartender

Find and characterize barcoded viruses

agmcfarland/BEiGUIDE

Base editing detection and quantification extension for iGUIDE

agmcfarland/cookiecutter-data-science

A logical, reasonably standardized, but flexible project structure for doing and sharing data science work. Modified for bioinformatics.

agmcfarland/fabv_triclosan_tolerance_analysis

Analysis scripts for fabV & triclosan tolerance association paper

agmcfarland/FTPDataExchange

Python library for copy files to and from a remote server using FTP.

agmcfarland/hotROCs

ROC curve area matrix and heat map

agmcfarland/IntegrationFeatureHeatmap

Calculate ROC for integration sites and genomic features

agmcfarland/InvestigateIntegrations

Workflows to investigate integration site distributions in R

agmcfarland/VariaNNNts

Create synthetic reads with specified variants (SNPs and INDELs)

agmcfarland/GenomicTrackRepository

Store scripts used to make Bushman Lab genomic tracks

agmcfarland/iGUIDE_off_target_report_cd33