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Eric Edsinger's starred repositories

glances

Glances an Eye on your system. A top/htop alternative for GNU/Linux, BSD, Mac OS and Windows operating systems.

Language:PythonNOASSERTION25851 503 1866

alphafold

Open source code for AlphaFold.

Language:PythonApache-2.012153 225 841

ProtTrans

ProtTrans is providing state of the art pretrained language models for proteins. ProtTrans was trained on thousands of GPUs from Summit and hundreds of Google TPUs using Transformers Models.

Language:Jupyter NotebookAFL-3.01063 32 145

spades

SPAdes Genome Assembler

Language:C++NOASSERTION721 32 1116

miniprot

Align proteins to genomes with splicing and frameshift

Language:CMIT310 7 55

genomescope

Fast genome analysis from unassembled short reads

Language:JavaScriptApache-2.0241 20 127

metaeuk

MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics

Language:CGPL-3.0173 9 87

ggtranscript

Visualizing transcript structure and annotation using ggplot2

Language:RNOASSERTION120 3 12

fcs

Foreign Contamination Screening caller scripts and documentation

NOASSERTION89 17 88

wengan

An accurate and ultra-fast hybrid genome assembler

Language:PerlAGPL-3.083 7 77

MARVEL

The MARVEL assembler

Language:CNOASSERTION76 170

TransposonUltimate

TransposonUltimate - a holistic set of tools for transposon identification

GPL-3.075 6 15

finishingTool

finshingTool

Language:C++MIT53 4 25

LR_Gapcloser

use long sequenced reads to close gaps in assemblies

Language:PerlGPL-3.031 2 14

singularityware.github.io

base documentation site for Singularity software

Language:JavaScript27 7 68

samstat

SAMStat displays various properties of next-generation sequencing reads stored in SAM/BAM format.

Language:CNOASSERTION23 3 14

MAC

Merging assemblies by using adjacency algebraic model and classification

Language:C++22 3 10

LazyB

Economic Genome Assembly from Low Coverage Illumina and Nanopore Data

Language:Python19 1 4

RepeatScout

The RepeatScout 1.0.5, written by Pevzner et al., source code for browsing. The official release and more information are available at http://bix.ucsd.edu/repeatscout/

Language:C13 2 5