Josh L. Espinoza (@jolespin)
github

jolespin

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Top repositories

1

veba

A modular end-to-end suite for in silico recovery, clustering, and analysis of prokaryotic, microeukaryotic, and viral genomes from metagenomes
Python
69
star
2

compositional

Compositional data analysis in Python
Python
15
star
3

soothsayer

High-level analysis package for (bio-)informatics
Python
9
star
4

projects

Various research projects
Jupyter Notebook
6
star
5

clairvoyance

AutoML simultaneous bayesian hyperparameter optimization and feature selection
Python
6
star
6

pykofamsearch

Fast implementation of KofamScan optimized for high-memory systems using PyHmmer
Python
5
star
7

hive_networkx

Hive plots in Python
Python
4
star
8

fastq_preprocessor

Fastq preprocessor with optional contamination removal. Supports short and long reads.
Python
4
star
9

pyhmmsearch

Fast implementation of HMMSEARCH optimized for high-memory systems using PyHmmer
Python
4
star
10

ensemble_networkx

Ensemble networks in Python
Python
4
star
11

genopype

Architecture for creating bash pipelines, in particular, for bioinformatics
Python
2
star
12

soothsayer_utils

Utility functions for Soothsayer
Python
2
star
13

nif_finder

NMD Inducible Feature Finder
Jupyter Notebook
2
star
14

pipelines

Automated informatics pipelines with consistent directory structures
Python
1
star
15

genomic_neighborhood

Versatile command-line tool designed to create publication quality genomic neighborhood plots built on top of DnaFeaturesViewer
Python
1
star