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Eric Edsinger's starred repositories

napari

napari: a fast, interactive, multi-dimensional image viewer for python

Language:PythonBSD-3-Clause2136 47 2940

cellpose

a generalist algorithm for cellular segmentation with human-in-the-loop capabilities

Language:Jupyter NotebookBSD-3-Clause1275 29 842

ggcharts

Get You to Your Desired Plot Faster

Language:RNOASSERTION289 16 57

purge_dups

haplotypic duplication identification tool

Language:CMIT202 9 141

aicsimageio

Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Python

Language:PythonNOASSERTION198 10 260

RepeatModeler

De-Novo Repeat Discovery Tool

Language:PerlNOASSERTION183 8 237

phyml

PhyML -- Phylogenetic estimation using (Maximum) Likelihood

Language:CGPL-3.0173 20 155

redundans

Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.

Language:C++GPL-3.0129 8 103

TETools

Dfam Transposable Element Tools Docker container.

Language:PerlCC0-1.079 4 41

TreeCluster

Efficient phylogenetic clustering of viral sequences

Language:PythonGPL-3.071 3 10

ultra

Long-read splice alignment with high accuracy

Language:Python60 4 23

RATTLE

Reference-free reconstruction and error correction of transcriptomes from Nanopore long-read sequencing

Language:C++GPL-3.056 8 50

GenomeAlignmentTools

Tools for improving the sensitivity and specificity of genome alignments

Language:CMIT56 7 25

HaploMerger2

39 8 33

EnTAP

Eukaryotic Non-Model Transcriptome Annotation Pipeline - Latest Release v1.2.1 - HGT Analysis Released! Revamped figures/graphics coming soon.

Language:CGPL-3.037 7 50

BUSCO_phylogenomics

BUSCO Phylogenomics | Utility script to construct species phylogenies using BUSCO proteins

Language:PythonMIT37 4 15

MAGUS

Graph Clustering Merger

Language:PythonMIT31 3 12

prequal

PREQUAL: a pre-alignment quality filter for comparative sequence analyses

Language:C++GPL-3.030 4 4

pastml

Ancestral character reconstruction and visualisation for rooted phylogenetic trees

Language:PythonGPL-3.029 8 22

PosiGene

Language:PerlNOASSERTION23 4 9

QuartetScores

Code for computing various support scores for internodes

Language:C++GPL-3.017 6 8

r4bio

Intro to R for Biology learnr Tutorials

Language:RNOASSERTION11 20

Dinoflagellate_Annotation_Workflow

Dinoflagellate Annotation Workflow

Language:Perl11 20

TreeGrafter

TreeGrafter is a new software tool for annotating uncharacterized protein sequences, using annotated phylogenetic trees.

Language:PerlGPL-3.010 3 7

AIDD

Automated Isoform Discovery Detector

Language:Shell5 3 1

contactGroups

Language:Scala400

TRP_Structural_Alignment

Language:PythonUnlicense4 30

MitoPhAST

Language:Perl3 1 5

ProteinRavel

A loose collection of Python modules for characterizing the evolution of protein family sequence, structure and function

Language:Rich Text FormatGPL-3.01 10

pyali

Language:PythonMIT1 20