Pinned Repositories
cPecan-signal
C + python code for pairwise multiple sequence alignment, pulling out this functionality from the Cactus alignment program adapted to align signal-level information from ONT MinION
CytosineMethylationAnalysis
Scripts and ipython notebooks for reproducing results from "Cytosine Methylation Variation Calling with MinION Nanopore Sequencing"
HiPhase
Small variant, structural variant, and short tandem repeat phasing tool for PacBio HiFi reads
kafka-actix-example
Classic wordcount, updated with async/await!
PoaGo
PO-MSA in #golang
R3N
Recurrent neural network for nanopores
signalAlign
HMM-HDP models for MinION signal alignments
signalAlign_notebook
Notes and scripts for signalAlign
SVM
SVM analysis of nanopore signal
modkit
A bioinformatics tool for working with modified bases
ArtRand's Repositories
ArtRand/VClr
Variant caller for signalAlign
ArtRand/gssw
efficient alignment of strings to partially ordered string graphs
ArtRand/PoaGo
PO-MSA in #golang
ArtRand/stats
A statistics package with common functions that are missing from the Golang standard library.
ArtRand/toTheNines
Scripts for exploring MinION R9 data
ArtRand/serviceCourse
Tiny lightweight python library for bioinformatics
ArtRand/R3N
Recurrent neural network for nanopores
ArtRand/SVM
SVM analysis of nanopore signal
ArtRand/jobTree
Python based pipeline management software for clusters that makes running recursive and dynamically scheduled computations straightforward. So far works with gridEngine, lsf, parasol and on multi-core machines.
ArtRand/Helicase-Reread-Project
A repository for various models and scripts used in the Helicase Reread Project.
ArtRand/PyPore
Tools used to analyze data from nanopore-based experiments.
ArtRand/pandas-cookbook
Recipes for using Python's pandas library