Pinned Repositories
AEM-funbuts
bash_fun
bash functions for common sequence manipulations. Use with gnu parallel.
BB10-IJSEM
Code for generating phylogenetic trees and figures associated with BB10's IJSEM paper
bioinformatics-workbook
Bioinformatics Workbook repository
Campy_HGT
drep
Rapid comparison and dereplication of genomes
gifrop
Genomic Islands From Roary Pangenomes
mastitis_scRNAseq
p_t_meta
growth rate estimates from metagenomic assemblies
pdtools
Functions for working with NCBI's Pathogen Detection data
Jtrachsel's Repositories
Jtrachsel/gifrop
Genomic Islands From Roary Pangenomes
Jtrachsel/pdtools
Functions for working with NCBI's Pathogen Detection data
Jtrachsel/bash_fun
bash functions for common sequence manipulations. Use with gnu parallel.
Jtrachsel/bioinformatics-workbook
Bioinformatics Workbook repository
Jtrachsel/Campy_HGT
Jtrachsel/FS12b
Jtrachsel/funfuns
A collection of functions I use for data analysis
Jtrachsel/mastitis_scRNAseq
Jtrachsel/p_t_meta
growth rate estimates from metagenomic assemblies
Jtrachsel/ecoli_nutritional_competition
Jtrachsel/enrich_predict
Jtrachsel/FS1
Jtrachsel/FS12
Jtrachsel/FS17-flow
Helping Kristen with FS17 flow stuff
Jtrachsel/FS19
Jtrachsel/fsep_meetup
Jtrachsel/gifrop_build
conda build files for gifrop
Jtrachsel/gifrop_examples
Jtrachsel/hberg
Salmonella enterica serovar Heidelberg
Jtrachsel/Infantis
Jtrachsel/jej_Nuc_BD
BD Rhapsody multiplexed single nucleus sequencing
Jtrachsel/megares_db_4_abricate
abricate formatted megares db
Jtrachsel/non_O157_proteomics
Jtrachsel/O157_overview
Jtrachsel/pandas-workshop
An introductory workshop on pandas with notebooks and exercises for following along.
Jtrachsel/programming-with-data
🐍 Learn Python and Pandas from the ground up
Jtrachsel/RPS-2017
Jtrachsel/simulate_metagenomes
Code modified from https://github.com/fmaguire/MAG_gi_plasmid_analysis focusing on simulating metagenomes
Jtrachsel/US_poultry
Jtrachsel/viroseqs
abricate formatted database to detect phage genes. Messily constructed from the databases used in Prophet