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bbmap

an archive version of BBmap v39.0

cap3

a backup version of CAP3

epinano_lite

Detection of RNA modifications from Oxford Nanopore direct RNA sequencing reads (Liu*, Begik* et al., Nature Comm 2019)

evoseq_rna

An in-house bioinformatic framework for bulk RNA-seq analysis

gapfiller

GapFiller

gatk3_archive

An archive version of 3.6-6 for compatibility support only ( license restricted for commercial use)

jaffa

JAFFA is a multi-step pipeline that takes either raw RNA-Seq reads, or pre-assembled transcripts, then searches for gene fusions

lrsday

LRSDAY: Long-read Sequencing Data Analysis for Yeasts

maker3beta_archive

maker-3.00.0-beta.tar.gz

nanotrans

An integrated computational framework for comprehensive transcriptome analyses with Nanopore direct-RNA sequencing data

reannotate_longqueryname

A slightly modified version of the program REannotate (http://www.bioinformatics.org/reannotate/) to support for longer query names.

recombinex

A computational framework for tetrad-based genotyping & recombination landscape analysis

rmrb

This is an archive version of old RepBase library (v20170127) for RepeatMasker.

sga

de novo sequence assembler using string graphs

simug

simuG: a general-purpose genome simulator

slamseq

A customized SLAM-seq analysis pipeline

supplementarydata_for_asymmetron_cne_paper_2016

Supplementary Data for Asymmetron CNE paper (2016)

try_git

varathon

A scalable variant calling and benchmarking framework supporting both short and long reads.

yeast_pacbio_2016