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Software library for sparse, compressed, binary persistent storage format used to store genomic interaction data, such as Hi-C contact matrices.Scalable storage for Hi-C data and other genomically labeled arrays.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software provides command line interface and Python API for working with Biological Observation Matrix files.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software Python library for analysis of genomic sequence data. Framework for novel probabilistic analyses of biological sequences, devising workflows, and generating publication quality graphics.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software application for efficient comparison of genomic intervals in Python.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software application for perpendicular line scanning fluorescence correlation spectroscopy.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool for aligning sequences to template alignment.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Open source Python-based optimization modeling language with diverse set of optimization capabilities.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software airr reference library provides basic functions and classes for interacting with AIRR Community Data Representation Standards, including tools for read, write and validation.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Open source Python software package designed to perform azimuthal integration and, correspondingly, two-dimensional regrouping on area-detector frames for small- and wide-angle X-ray scattering experiments.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software application to compute metrics and generate interactive QC plots for Oxford Nanopore technologies sequencing data.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool implementing novel indexing data structure for compacted de Bruijn graph and colored compacted de Bruijn graph.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool for selecting target specific peptide candidates directly from given proteome sequence data.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software library for coding psychology experiments in Python.Supports presentation of both visual and auditory stimuli, and supports both manual and sound input as responses.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tools for creating the sequence-to-structure alignment database PSSH2.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool that identifies interacting residues from sequence alone. Developed using transient protein�protein interfaces from complexes of experimentally known 3D structures.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software Perl application for quality control and data preprocessing of genomic and metagenomic datasets. Used to filter, reformat, or trim genomic and metagenomic sequence data. Generates summary statistics of sequences in graphical and tabular format.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool to detect orthologous genes within different species. Stand-alone tool for large datasets for orthology analysis.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software Perl tools for plasmid analysis in NGS projects.Identifies, visualizes and analyzes plasmids in WGS projects by creating a network of contig interactions, thus allowing comprehensive plasmid analysis within WGS datasets.Optimized to work with Illumina sequences but it also works with 454, Iontorrent or any of the actual sequence technologies. The input of placnet is a set of contigs and one or more SAM files with the mapping of the reads against the contigs. Placnet obtains a set of files, easily opened on Cytoscape software or other network tools.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Population genetic software for individuals or populations distances based on allelic frequencies, phylogenetic trees, file conversions.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software application as protein�ligand interaction profiler to identify non-covalent interactions between biological macromolecules and their ligands. Provides atom level information on binding characteristics as well as publication ready visualizations and parsable output files. PLIP web tool is based on PLIP command line tool and offers graphical interface for analysis of few structures.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth