noahaus Goto Github PK

ai-hackathon-flask

anoma

an R command line tool to find outliers in data unsupervised

aug-septrotation2018

Rotation project based on best practices to study metabolomic data. Wrote python scripts to extract enriched metabolites and do some analysis.

bacteria_snp

Salvador Lab in-house variant calling script for Sapelo2 (still in development )

cpphelloworld

Code for C++ beginner

dev_script

Cluster scripts and programs

epimodel

Mathematical Modeling of Infectious Disease Dynamics

mbovpan_auxilary_files

files that assisted in development of mbovpan, but are not necessarily needed in the main repo

metri

Multiomic integration of metagenomic and metatranscriptomic data

micellaneous-tools

Programs that push me to understand the python programming language.

mlmessage

Web App Messaging with Machine Learning features built in place

mod5_ecol8540

msa_trim

A tool to trim multi-sequence alignment for gaps and ambiguity codes.

multihostr

Transmission Simulator based on Multi-Host SIR model parameters.

nast

pairwise BLAST, but with a hint of Noah

noahaus.github.io

pangenomepipelinescripts

A repository for the scripts I developed to do pangenome inference using SPAdes, prokka, and Roary.

pansplit

a command line tool for pangenome creation based on metadata

presentations

All my presentations through the PhD process

recombination_heatmap

takes the gubbins GFF output and creates a heatmap csv for further processing

scoary

Pan-genome wide association studies

sep-nov_rotation

sliding-window-scripts

python scripts to analyze multi-sequence alignment (FASTA) data

snp-align

take VCF files (preferably filtered) and creates fasta output for SNP positions.

sra_scraper

A tool to access NCBI SRA Run Selector metadata

summerrotation2018

a collection of all the python scripts generated during the summer rotation of 2018.

supervisedmotifscanner

Generate a PSSM with sequence test data. non concurrent

trp-orfamide-interaction

in-silico modeling of TRP28 protein for docking analysis of orfamide A, a toxin of microalgae C. reinhardtii

vcf2phylip

Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis

vcf_parser

extract no. of SNP, Insertions, and Deletions