GIGGLE: a search engine for large-scale integrated genome analysis
...isting methods. Its speed extends the accessibility and utility of resources such as ENCODE, Roadmap Epigenomics, and GTEx by facilitating data integration and hypothesis generation. h...2359 days ago
HTTDB - Horizontally transferred transposable elements database
...oreover, we expanded the database to include Horizontal-Virus Transfer also known as endogenization events which is characterized by the stable integration a viral genomic fragment into...2346 days ago
ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data
...ing evolutionary models, (iii) calculating distances between trees of different size or including duplications, and (iv) providing seamless integration with the NCBI taxonomy databa...2319 days ago
TULIP - The Uncorrected Long read Integration Pipeline
TULIP currently consists of two Perl scripts, tulipseed.perl and tulipbulb.perl. These are very much intended as prototypes, and additional components and/or implementati...2234 days ago
mmgenome: Tools for extracting individual genomes from metagneomes
...ole process of binning easy and at the same time reproducible through the Rmarkdown format. The mmgenome R package also facilitates effortless integration with additional data sources...2147 days ago
Hercules: a profile HMM-based hybrid error correction algorithm for long reads
...Memory- and time- efficient machine learning algorithms that address these shortcomings have the potential to achieve better and more accurate integration of these two technologies. Re...2137 days ago
ZENBU: a collaborative, omics data integration and interactive visualization system
ZENBU is a data integration, data analysis, and visualization system enhanced for RNAseq, ChipSeq, CAGE and other types of next-generation-sequence-tag (NGS) based data. ZENBU...2000 days ago
HumCFS: a database of fragile sites in human chromosomes
...egions (CFS), several line of evidence suggests their involvement in human pathologies and they have been recognized as a preferential site for integration of exogenous oncogenic DNA vi...1892 days ago
1614 days ago
Nucleus: Python and C++ code for reading and writing genomics data.
...esigned to make it easy to read, write and analyze data in common genomics file formats like SAM and VCF. In addition, Nucleus enables painless integration with the TensorFlow machine l...1606 days ago