We strongly collaborate with the lab of Associate Professor Aristotelis Tsirigos (http://tsirigos.com/).
This collaboration has resulted in the development of computational tools by Dr.
Tsirigos and his team for various types of analysis in Genomics. A list of the tools
and the corresponding publications, is given below:
Genomic-tools: a flexible computational platform for analyzing genomic data (published in Bioinformatics by Tsirigos et al.).
HiC-bench: a Hi-C analysis pipeline that allows combinatorial parameter exploration and benchmarking (published in BMC Genomics by Lazaris et al.).
Publication link: http://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-016-3387-6
Github page: https://github.com/NYU-BFX/hic-bench
lncRNA-screen: an interactive platform for computationally screening long non-coding RNAs in large genomics datasets (Submitted manuscript by Gong et al.).
Github page: https://github.com/NYU-BFX/RNA-Seq_Standard