idpr
'idpr' (Intrinsically Disordered Proteins in R) is an R package designed for the computational analysis of intrinsically disordered proteins (IDPs) and intrinsically disordered regions (IDRs). IDPs and IDRs are characterized by their lack of a single native structure, allowing them to adopt multiple conformations rapidly. These proteins play crucial roles in various biological processes, and the emerging field of "unstructured biology" has been fueled by computational studies identifying the unique characteristics of IDPs and IDRs.
'idpr' provides several R functions that match established characteristics of IDPs to protein sequences of interest. These functions include calculations of residue composition, charge-hydropathy relationships, and intrinsic disorder predictions. Additionally, the package integrates various amino acid substitution matrices and calculators to enhance workflows related to IDPs.
Topic
Small molecules;Protein folds and structural domains;Protein disordered structure;Proteomics;Protein properties
Detail
Operation: Protein disorder prediction;Protein secondary structure prediction (coils);Protein structure prediction;Protein hydropathy calculation
Software interface: Library
Language: R
License: GNU Lesser General Public License v3.0
Cost: Free
Version name: 1.12.0
Credit: National Institutes of Health (NIH).
Input: -
Output: -
Contact: William M. McFadden wmm27@pitt.edu
Collection: -
Maturity: Stable
Publications
- idpr: A package for profiling and analyzing Intrinsically Disordered Proteins in R.
- McFadden WM and Yanowitz JL. idpr: A package for profiling and analyzing Intrinsically Disordered Proteins in R. idpr: A package for profiling and analyzing Intrinsically Disordered Proteins in R. 2022; 17:e0266929. doi: 10.1371/journal.pone.0266929
- https://doi.org/10.1371/JOURNAL.PONE.0266929
- PMID: 35436286
- PMC: PMC9015136
Download and documentation
Source: https://bioconductor.org/packages/release/bioc/src/contrib/idpr_1.12.0.tar.gz
Documentation: https://bioconductor.org/packages/release/bioc/manuals/idpr/man/idpr.pdf
Home page: https://bioconductor.org/packages/idpr/
Links: https://bioconductor.org/packages/release/bioc/vignettes/idpr/inst/doc/sequenceMAP-vignette.R
Links: https://bioconductor.org/packages/release/bioc/vignettes/idpr/inst/doc/chargeHydropathy-vignette.R
< Back to DB search