blachlylab

fade

Fragmentase Artifact Detection and Elimination

dhtslib

D bindings and OOP wrappers for htslib

GLO

Go Language implementation of LiftOver

intervaltree

Interval tree structures in D

dklib

D ports of klib algorithms

dlang-static-docker

Build static D binaries with docker

recontig

Dynamic Contig Nomenclature Reassignment

swiftover

Fast liftover

typesafe-coordinates

Typesafe Coordinate Systems in High-Throughput Sequencing Applications

blachlylab-old-github-io

blachlylab.github.io

https://blachlylab.github.io/

cadd2vcf

A tool to modify VCFs with CADD score output

mucor3

Parses VCF data into tabular spreadsheets and aggregates data by sample

nopilesum

Alternative to GATK4's GetPileupSummaries using allele counting

pyega

EGA (European Genome-phenome archive) downloader

bedcov-it

benchmark interval tree impl's with ersatz bedtools cov

cgranges

A C/C++ library for fast interval overlap queries (with a "bedtools coverage" example)

depthGauge

dksw2

D bindings for ksw2

dparasail

Dlang Bindings for the Parasail alignment library.

fastq-grow

Lengthen the sequences in FASTQ files

fishnet

Filter multi-read fast5 files

gff3d

GFF3 parser in D / dlang

koalas

Ad hoc Data Frames

maskerade

N mask BAM file according to BED regions

nbib

MEDLINE/Pubmed .nbib format to CSL-JSON conversion

nbib-rs

MEDLINE/Pubmed .nbib format to CSL-JSON conversion

SABER

SABER: Selection of Amplicon Barcodes from Experimental Replicates

stdq

Route stdin/stdout through ZeroMQ

vcf_atomizer

Parses a VCF file into line-delimited json