hallamlab/fastLSA

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hallamlab/fastLSA

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An implementation of the Local Similarity Statistics using an approximate p-value upper bound

metapathways2

MetaPathways v2.0: A master-worker model for environmental Pathway/Genome Database construction on grids and clouds

TreeSAPP

A Python package for gene-centric taxonomic and functional classification using phylogenetic placement

mp_tutorial

A repository of notes, code, slides, and resources for the MetaPathways tutorial being held February 2014 at UBC.

LAST-Plus

Parallel implementation of the LAST aligner

pathway2vec

Leveraging Heterogeneous Network Embedding for Metabolic Pathway Prediction

LCAStar

Alternative taxonomic consensus algorithms based on the NCBI taxonomy tree

FragGeneScanPlus

Scalable high-throughput short-read open reading frame prediction

MetaPathways

A modular pipeline for constructing Pathway/Genome Databases from environmental sequence information

utilities

A repository of bioinformatics utilities and scripts commonly used in the Steven J. Hallam Laboratory in the Microbiology & Immunology Department of the University of British Columbia (UBC), Vancouver, British Columbia, Canada.

mlLGPR

Metabolic pathway inference using multi-label classification with rich pathway features

samsum

A light-weight python package for summarizing sequence coverage from SAM and BAM files

FAST

SABer

SAG Anchored Binner

MetaPathwaysGUI

koonkie

Hadoop framework for metagenomic processing

FabFos

A python-driven fosmid processing pipeline

SOFA

Short-ORF Functional Annotation Pipeline

RefPkgs

Repository for TreeSAPP reference packages

sgRNAble

reMap

reMap: relabeling metabolic pathway data with groups to improve prediction outcomes