Pinned Repositories
BaseballCap
BaseballCap is an RNA-seq Junction Read Aligner based on the Burrow-Wheeler Transform (BWT) with Last-First (LF) mapping, created as a final project for a bioinformatics course. It is meant to be a simple, crude approximation of the popular tool TopHat, hence the name BaseballCap (a "poor man's TopHat")
bioconda-recipes
Conda recipes for the bioconda channel.
conky_wunderlist
CSE182
CSE 182 at UCSD (Spring 2018)
fastq_set
Tools for working FASTQ files from sequencers (R1/R2/I1/I2)
hapcut2
Performs haplotype assembly from genomic DNA sequence reads for a single individual using a maximum-likelihood based approach. Performs well on diverse NGS technologies, including long read data and Hi-C.
longshot
diploid SNV caller for error-prone reads
longshot_study
This repository contains a Snakemake recipe to recreate the Longshot study
martian-rust
Adapter for writing Martian stages in Rust
rust-spoa
Rust crate with bindings and interface to the SPOA library for generating consensus sequences.
pjedge's Repositories
pjedge/longshot
diploid SNV caller for error-prone reads
pjedge/rust-spoa
Rust crate with bindings and interface to the SPOA library for generating consensus sequences.
pjedge/hapcut2
Performs haplotype assembly from genomic DNA sequence reads for a single individual using a maximum-likelihood based approach. Performs well on diverse NGS technologies, including long read data and Hi-C.
pjedge/longshot_study
This repository contains a Snakemake recipe to recreate the Longshot study
pjedge/conky_wunderlist
pjedge/BaseballCap
BaseballCap is an RNA-seq Junction Read Aligner based on the Burrow-Wheeler Transform (BWT) with Last-First (LF) mapping, created as a final project for a bioinformatics course. It is meant to be a simple, crude approximation of the popular tool TopHat, hence the name BaseballCap (a "poor man's TopHat")
pjedge/bioconda-recipes
Conda recipes for the bioconda channel.
pjedge/CSE182
CSE 182 at UCSD (Spring 2018)
pjedge/fastq_set
Tools for working FASTQ files from sequencers (R1/R2/I1/I2)
pjedge/martian-rust
Adapter for writing Martian stages in Rust
pjedge/rust-htslib
This library provides HTSlib bindings and a high level Rust API for reading and writing BAM files.
pjedge/rust-toolbox
Rust utility code
pjedge/SISSOR
Scripts for analysis of SISSOR data.
pjedge/talon_scripts_public
a single source of application-specific scripts