Software

List of web servers and software programs

Medaka genomic resource New version of medaka genomic resource by SMRT long read sequencing
Kazuki Ichikawa, Jun Yoshimura, Koichiro Doi,
Shingo Tomioka, Yuta Suzuki
AgIn Process SMRT sequencing kinetic summary to predict regional methylation on large genome
Yuta Suzuki
BoostKCP A simple but powerful heuristic method for accelerating k-means clustering of large-scale data in life science
Kazuki Ichikawa
TRhist
Rapid detection of expanded short tandem repeats in personal genomics using hybrid sequencing
Koichiro Doi
WormTSS The Primary Transcriptome of C. elegans
Taro L. Saito
UTGB Toolkit Tools for Developing Personalized Genome Browsers
Taro L. Saito, Jun Yoshimura
FreClu Tool for Sequencing-error Trimming in Short Read
Wei Qu
UTGB medaka genome browser Genome Browser for Medaka-fish
Masahiro Kasahara, Shin Sasaki, Yoichiro Nakatani, Wei Qu, Budrul Ahsan, Tomoyuki Yamada, Yukinobu Nagayasu, Koichiro Doi et al.
UT Genome Browser (Yeast) Genome Browser for Budding Yeast
Jun Sese
siDirect highly effective, target specific siRNA online design site
NAR publication
Tomoyuki Yamada, Jun Yoshimura, Yuki Naito
dsCheck highly effective, target specific dsRNA online design site,
Tomoyuki Yamada, Yuki Naito
SCMD The Saccharomyces Cerevisiae Morphological Database (SCMD) is a collection of micrographs of budding yeast mutants.
Jun Sese, Taro L. Saito, Miwaka Otani, Hiroshi Sawai
PrimerStation Tool for designing multiplex genomic PCR primer
Tomoyuki Yamada, Haruhiko Soma