yjx1217

simuG

simuG: a general-purpose genome simulator

LRSDAY

LRSDAY: Long-read Sequencing Data Analysis for Yeasts

RMRB

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

NanoTrans

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

Varathon

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

RecombineX

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

Yeast_PacBio_2016

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

Maker3beta_archive

maker-3.00.0-beta.tar.gz

REannotate_LongQueryName

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

sga

de novo sequence assembler using string graphs

SLAMseq

A customized SLAM-seq analysis pipeline

SupplementaryData_for_Asymmetron_CNE_paper_2016

Supplementary Data for Asymmetron CNE paper (2016)

try_git