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Software R package provides efficient containers for storing and manipulating short genomic alignments. This includes read counting, computing the coverage, junction detection, and working with the nucleotide content of the alignments.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software R package contains data and functions that define and allow translation between different chromosome sequence naming conventions, including function that attempts to place sequence names in their natural, rather than lexicographic order.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software R package provides functions for plotting genomic data

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software R package provides large scale identification and advanced visualization of sets of conserved noncoding elements.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software R package for export and import classification trees and clusters to other programs.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software R pacakge provides functions and load identifier mapping databases in R. Uses GitHub, Zenodo, and Figshare if you use this package to download identifier mappings files.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software R package provides infrastructure shared by all the Biostrings-based genome data packages.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software R package to provide set of utilities, color schemes and conventions for genomic data. Used for various high-level packages for biological data visualization.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software R package for interfacing with BIOM format. This package includes basic tools for reading biom-format files, accessing and subsetting data tables from a biom object, limited support for writing biom-object back to biom-format file.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software R package to provide a client for the Bioconductor AnnotationHub web resource. AnnotationHub web resource provides a central location where genomic files (e.g., VCF, bed, wig) and other resources from standard locations (e.g., UCSC, Ensembl) can be discovered.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software R package defines many S4 generic functions used in Bioconductor.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software R package contains convenience data structures and functions to handle cdfenvs.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software R package provides functions that are needed by many other packages or which replace R functions. Base functions for Bioconductor.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software R package as routines for parsing Affymetrix data files based upon file format information. Primary focus is on accessing CEL and CDF file formats.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool for detecting conserved amino-acid sites by computing relative evolutionary rate for each site in multiple sequence alignment. Used for identification of functional regions in proteins.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software R package for using R enviroments for annotation.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tools for generating high quality raster images of proteins or other molecules. Photorealistic molecular graphics. The core program renders spheres, triangles, cylinders, and quadric surfaces with specular highlighting, Phong shading, and shadowing.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software open-source, cloud-optimized pipeline developed in collaboration with members of the BRAIN Initiative (BICCN and BICAN Sequencing Working Group) and SCORCH. It supports the processing of 10x 3' single-cell and single-nucleus gene expression (GEX) and chromatin accessibility (ATAC) data generated with the 10x Genomics Multiome assay.

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• RRID
• 3 years ago - submitted by Kaylee Mathews

Software R package allowing integration of Ensembl querying with R workflow. Used to seemlessly integrate querying of Ensembl databases into your R workflow.

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• RRID
• 3 years ago - by Anonymous

Software suite of Docker images with customized R environments for particular tasks. Docker containers for R to create, distribute, deploy, and run software applications using containers.

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• RRID
• 3 years ago - by Anonymous