BlaSTorage: a fast package to parse, manage and store BLAST results [0.03%]
超快的BLAST结果解析、管理和存储工具包BlaSTorage
Massimiliano Orsini,Simone Carcangiu
Massimiliano Orsini
Background: Large-scale sequence studies requiring BLAST-based analysis produce huge amounts of data to be parsed. BLAST parsers are available, but they are often missing some important features, such as keeping all infor...
Simon Barkow-Oesterreicher,Can Türker,Christian Panse
Simon Barkow-Oesterreicher
Background: Data processing in the bioinformatics field often involves the handling of diverse software programs in one workflow. The field is lacking a set of standards for file formats so that files have to be processed...
Knowledge Driven Variable Selection (KDVS) - a new approach to enrichment analysis of gene signatures obtained from high-throughput data [0.03%]
基于知识的变量选择(KDVS)-一种对从高通量数据获得的基因特征进行富集分析的新方法
Grzegorz Zycinski,Annalisa Barla,Margherita Squillario et al.
Grzegorz Zycinski et al.
Background: High-throughput (HT) technologies provide huge amount of gene expression data that can be used to identify biomarkers useful in the clinical practice. The most frequently used approaches first select a set of ...
MmPalateMiRNA, an R package compendium illustrating analysis of miRNA microarray data [0.03%]
MmPalateMiRNA，一个用于演示miRNA微阵列数据分析的R软件包资料集
Guy N Brock,Partha Mukhopadhyay,Vasyl Pihur et al.
Guy N Brock et al.
Background: MicroRNAs (miRNAs) constitute the largest family of noncoding RNAs involved in gene silencing and represent critical regulators of cell and tissue differentiation. Microarray expression profiling of miRNAs is ...
MALINA: a web service for visual analytics of human gut microbiota whole-genome metagenomic reads [0.03%]
MALINA：一个人类肠道微生物组基因组元基因组读数的可视化网络服务
Alexander V Tyakht,Anna S Popenko,Maxim S Belenikin et al.
Alexander V Tyakht et al.
MALINA is a web service for bioinformatic analysis of whole-genome metagenomic data obtained from human gut microbiota sequencing. As input data, it accepts metagenomic reads of various sequencing technologies, including long reads (such as...
RMol: a toolset for transforming SD/Molfile structure information into R objects [0.03%]
RMol：一种将SD / Molfile结构信息转换为R对象的工具集
Martin Grabner,Kurt Varmuza,Matthias Dehmer
Martin Grabner
Background: The graph-theoretical analysis of molecular networks has a long tradition in chemoinformatics. As demonstrated frequently, a well designed format to encode chemical structures and structure-related information...
A CellML simulation compiler and code generator using ODE solving schemes [0.03%]
一种使用常微分方程求解方法的CellML仿真编译器和代码生成器
Florencio Rusty Punzalan,Yoshiharu Yamashita,Naoki Soejima et al.
Florencio Rusty Punzalan et al.
: Models written in description languages such as CellML are becoming a popular solution to the handling of complex cellular physiological models in biological function simulations. However, in order to fully simulate a model, boundary cond...
Bhaskar Dutta,Anders Wallqvist,Jaques Reifman
Bhaskar Dutta
Background: Identification of canonical pathways through enrichment of differentially expressed genes in a given pathway is a widely used method for interpreting gene lists generated from high-throughput experimental stud...
CADLIVE optimizer: web-based parameter estimation for dynamic models [0.03%]
基于网络的动态模型参数估计-CADLIVE优化器
Kentaro Inoue,Kazuhiro Maeda,Yuki Kato et al.
Kentaro Inoue et al.
Computer simulation has been an important technique to capture the dynamics of biochemical networks. In most networks, however, few kinetic parameters have been measured in vivo because of experimental complexity. We develop a kinetic param...
JobCenter: an open source, cross-platform, and distributed job queue management system optimized for scalability and versatility [0.03%]
JobCenter：一种开源、跨平台并优化了扩展性和通用性的分布式任务队列管理系统
Daniel Jaschob,Michael Riffle
Daniel Jaschob
Background: Laboratories engaged in computational biology or bioinformatics frequently need to run lengthy, multistep, and user-driven computational jobs. Each job can tie up a computer for a few minutes to several days, ...