Pinned Repositories
amplicon_cluster
De novo clustering of full-length amplicon sequences
appengine-rss
A simple RSS feed aggregator and reader for Google AppEngine
c-minhash
Simple and fast MinHash implementation in C with Python wrapper
editor
A generic client-side javascript file editor
flowchart-svg
An extension of svg.js to add flowchart-specific functions
lrc_eval
Long read error correction evaluation scripts
msbwt
A python toolkit for building and querying multi-string BWTs
ralf
A long-read sequence aligner in Rust
sequence-bias-adjustment
Method and utilities for reweighting sequence read counts to adjust for nucleotide bias from assay or sequencing
spaghetti
Visualizing alignments for sequence overlap assembly and scaffolding
txje's Repositories
txje/c-minhash
Simple and fast MinHash implementation in C with Python wrapper
txje/sequence-bias-adjustment
Method and utilities for reweighting sequence read counts to adjust for nucleotide bias from assay or sequencing
txje/appengine-rss
A simple RSS feed aggregator and reader for Google AppEngine
txje/lrc_eval
Long read error correction evaluation scripts
txje/amplicon_cluster
De novo clustering of full-length amplicon sequences
txje/flowchart-svg
An extension of svg.js to add flowchart-specific functions
txje/msbwt
A python toolkit for building and querying multi-string BWTs
txje/ralf
A long-read sequence aligner in Rust
txje/anotheraligner
Another aligner with k-mer seeding, chaining, and dynamic banding DP, mostly for educational purposes
txje/bntools
Tools for BioNano data analysis
txje/bulk-fast5-browser
txje/compatible-intervals
Methods for computing genome-wide four-gamete compatible intervals describing local phylogenetic structure
txje/cthulhu
Taxonomic classification of metagenomes (or anything else)
txje/cwDTW
Continuous Wavelet Dynamic Time Warping for unbalanced global mapping of two signals
txje/depore
txje/F-seq
A Feature Density Estimator for High-Throughput Sequence Tags
txje/fastat
txje/flac
Full-length amplicon clustering
txje/fmlrc
a long-read error correction tool using the multi-string Burrows Wheeler Transform
txje/gel-js
txje/KMC
Fast and frugal disk based k-mer counter
txje/minlookup
Fast memory-efficient pre-alignment of long high-error sequences using locality-sensitive hashing
txje/minnow
A long-read RNA quantifier with as confusing a name as possible
txje/overlap-aligner
Tools for semi-global/overlap/edge alignment in C
txje/population-ancestry-viewer
A flexible web-based framework for visualization of collinear genomic features
txje/rekit
A toolkit for processing restriction maps
txje/restriction-map
Display histogram and visual map of restriction enzyme cut sites for fixed data
txje/rust-bio
This library provides implementations of many algorithms and data structures that are useful for bioinformatics. All provided implementations are rigorously tested via continuous integration.
txje/Unicycler
hybrid assembly pipeline for bacterial genomes
txje/vsearch
Versatile open-source tool for metagenomics