Package: idpr 1.17.0
William M. McFadden
idpr: Profiling and Analyzing Intrinsically Disordered Proteins in R
‘idpr’ aims to integrate tools for the computational analysis of intrinsically disordered proteins (IDPs) within R. This package is used to identify known characteristics of IDPs for a sequence of interest with easily reported and dynamic results. Additionally, this package includes tools for IDP-based sequence analysis to be used in conjunction with other R packages. Described in McFadden WM & Yanowitz JL (2022). "idpr: A package for profiling and analyzing Intrinsically Disordered Proteins in R." PloS one, 17(4), e0266929. <https://doi.org/10.1371/journal.pone.0266929>.
Authors:
idpr_1.17.0.tar.gz
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idpr.pdf |idpr.html✨
idpr/json (API)
| # Install 'idpr' in R: |
| install.packages('idpr', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/wmm27/idpr/issues
- DUNMat - A Substitution Matrix for Aligning Intrinsically Disordered Proteins
- Disorder40 - Disorder-based Substitution Matrices.
- Disorder60 - Disorder-based Substitution Matrices.
- Disorder85 - Disorder-based Substitution Matrices.
- EDSSMat50 - EDSSMat Disorder-based Substitution Matrices.
- EDSSMat60 - EDSSMat Disorder-based Substitution Matrices.
- EDSSMat62 - EDSSMat Disorder-based Substitution Matrices.
- EDSSMat70 - EDSSMat Disorder-based Substitution Matrices.
- EDSSMat75 - EDSSMat Disorder-based Substitution Matrices.
- EDSSMat80 - EDSSMat Disorder-based Substitution Matrices.
- EDSSMat90 - EDSSMat Disorder-based Substitution Matrices.
- GorillaTP53 - Human Cellular tumor antigen p53 and homologs
- KDNorm - Kyte and Doolittle Scaled Hydropathy Index
- TP53Sequences - Human Cellular tumor antigen p53 and homologs
- pKaData - Sets of pKa values for Charged Amino Acids
On BioConductor:idpr-1.17.0(bioc 3.21)idpr-1.16.0(bioc 3.20)
structuralpredictionproteomicscellbiology
Last updated 2 months agofrom:91e32e9dc8. Checks:OK: 3 NOTE: 4. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Dec 02 2024 |
| R-4.5-win | OK | Dec 02 2024 |
| R-4.5-linux | OK | Dec 02 2024 |
| R-4.4-win | NOTE | Dec 02 2024 |
| R-4.4-mac | NOTE | Dec 02 2024 |
| R-4.3-win | NOTE | Dec 02 2024 |
| R-4.3-mac | NOTE | Dec 02 2024 |
Exports:chargeCalculationGlobalchargeCalculationLocalchargeHydropathyPlotfoldIndexRhendersonHasselbalchidprofileiuprediupredAnchoriupredRedoxmeanScaledHydropathynetChargescaledHydropathyGlobalscaledHydropathyLocalsequenceChecksequenceMapsequenceMapCoordinatessequencePlotstructuralTendencystructuralTendencyPlot
Dependencies:askpassBiocGenericsBiostringsclicolorspacecrayoncurldplyrfansifarvergenericsGenomeInfoDbGenomeInfoDbDataggplot2gluegtablehttrIRangesisobandjsonlitelabelinglatticelifecyclemagrittrMASSMatrixmgcvmimemunsellnlmeopensslpillarpkgconfigplyrR6RColorBrewerRcpprlangS4VectorsscalessystibbletidyselectUCSC.utilsutf8vctrsviridisLitewithrXVectorzlibbioc
Charge and Hydropathy Vignette
Rendered fromchargeHydropathy-vignette.Rmdusingknitr::rmarkdownon Dec 02 2024.Last update: 2022-12-10
Started: 2020-06-11
Disordered Matrices Vignette
Rendered fromdisorderedMatrices-vignette.Rmdusingknitr::rmarkdownon Dec 02 2024.Last update: 2024-04-23
Started: 2020-06-11
idpr Package Overview Vignette
Rendered fromidpr-vignette.Rmdusingknitr::rmarkdownon Dec 02 2024.Last update: 2022-12-10
Started: 2020-06-11
IUPred Vignette
Rendered fromiupred-vignette.Rmdusingknitr::rmarkdownon Dec 02 2024.Last update: 2022-12-10
Started: 2020-06-11
Sequence Map Vignette
Rendered fromsequenceMAP-vignette.Rmdusingknitr::rmarkdownon Dec 02 2024.Last update: 2022-12-10
Started: 2020-06-11
Structural Tendency Vignette
Rendered fromstructuralTendency-vignette.Rmdusingknitr::rmarkdownon Dec 02 2024.Last update: 2022-12-10
Started: 2020-06-11
