cmorganl
Bioinformatics post-doc with Steven Hallam (@hallamlab) at UBC and @Koonkie-Cloud-Services. Interested in microbial genomics, evolution and metabolism.
@hallamlab Montreal, Canada
cmorganl's Stars
bokulich-lab/RESCRIPt
REference Sequence annotation and CuRatIon Pipeline
nf-core/ampliseq
Amplicon sequencing analysis workflow using DADA2 and QIIME2
snakemake/snakemake-storage-plugin-gcs
A Snakemake storage plugin for Google Cloud Storage
snakemake/snakemake-executor-plugin-googlebatch
Snakemake executor plugin for Google Batch
shenwei356/gtdb-taxdump
GTDB taxonomy taxdump files with trackable TaxIds
leylabmpi/Struo2
Scalable creating/updating of metagenome profiling databases
picrust/picrust2
Code, unit tests, and tutorials for running PICRUSt2
alexwforsythe/code-blocks
Syntax highlighting for Google Docs
AstrobioMike/GToTree
A user-friendly workflow for phylogenomics
EnvironmentOntology/envo
A community-driven ontology for the representation of environments
pachterlab/ffq
A tool to find sequencing data and metadata from public databases.
althonos/pyhmmer
Cython bindings and Python interface to HMMER3.
const-ae/ggupset
Combination matrix axis for 'ggplot2' to create 'UpSet' plots
ncbi/sra-tools
SRA Tools
shenwei356/kmcp
Accurate metagenomic profiling && Fast large-scale sequence/genome searching
mamba-org/mamba
The Fast Cross-Platform Package Manager
pirovc/ganon
ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refseq/genbank), taxonomic profiling (ncbi/gtdb), binning and hierarchical classification, customized reporting and more
OpenGene/fastp
An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
MW55/Natrix
Open-source bioinformatics pipeline for the preprocessing of raw sequencing data.
rdpstaff/Xander_assembler
A gene-targeted assembler tool
chriskiehl/Gooey
Turn (almost) any Python command line program into a full GUI application with one line
WatsonLab/MAGpy
Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)
rrwick/Trycycler
A tool for generating consensus long-read assemblies for bacterial genomes
zhangjiajie/PTP
PTP model for species delimitation
pierrebarbera/scrapp
Species Counting on Reference trees viA Phylogenetic Placements
Pas-Kapli/mptp
mPTP - a tool for single-locus species delimitation
gamcil/clinker
Gene cluster comparison figure generator
xiaochuanle/NECAT
Nanopore data assembler
EddyRivasLab/hmmer
HMMER: biological sequence analysis using profile HMMs
plotly/plotly.py
The interactive graphing library for Python :sparkles: This project now includes Plotly Express!