Package: drugfindR 1.1.0
Ali Sajid Imami
drugfindR: Investigate iLINCS for candidate repurposable drugs
This package provides a convenient way to access the LINCS Signatures available in the iLINCS database. These signatures include Consensus Gene Knockdown Signatures, Gene Overexpression signatures and Chemical Perturbagen Signatures. It also provides a way to enter your own transcriptomic signatures and identify concordant and discordant signatures in the LINCS database.
Authors:
drugfindR_1.1.0.tar.gz
drugfindR_1.1.0.zip(r-4.7)drugfindR_1.1.0.zip(r-4.6)drugfindR_1.1.0.zip(r-4.5)
drugfindR_1.1.0.tgz(r-4.6-any)drugfindR_1.1.0.tgz(r-4.5-any)
drugfindR_1.1.0.tar.gz(r-4.7-any)drugfindR_1.1.0.tar.gz(r-4.6-any)
drugfindR_1.1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
drugfindR/json (API)
NEWS
| # Install 'drugfindR' in R: |
| install.packages('drugfindR', repos = c('https://cogdisreslab.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/cogdisreslab/drugfindr/issues
Pkgdown/docs site:https://cogdisreslab.github.io
On BioConductor:drugfindR-1.1.0(bioc 3.24)drugfindR-1.0.0(bioc 3.23)
lincsilincsdrug repurposingdrug discoverytranscriptomicsgene expressiongene knockdowngene overexpressionchemical perturbagendrugfindrbioinformaticsbioinformatics-pipeline
Last updated from:8f48c8682b. Checks:9 OK. Indexed: no.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 219 | ||
| source / vignettes | OK | 271 | ||
| linux-release-x86_64 | OK | 227 | ||
| macos-release-arm64 | OK | 155 | ||
| macos-oldrel-arm64 | OK | 189 | ||
| windows-devel | OK | 172 | ||
| windows-release | OK | 176 | ||
| windows-oldrel | OK | 157 | ||
| wasm-release | OK | 162 |
Exports:consensusConcordantsfilterSignaturegetConcordantsgetSignatureinvestigateSignatureinvestigateTargetprepareSignature
Dependencies:askpassBiocGenericsbitbit64clicliprcpp11crayoncurlDFplyrdplyrgenericsgluehmshttr2lifecyclemagrittropensslpillarpkgconfigprettyunitsprogresspurrrR6rappdirsreadrrlangS4Vectorsstringistringrsystibbletidyselecttzdbutf8vctrsvroomwithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Generate a Consensus list of Targets *[Stable]* | consensusConcordants |
| Filter the L1000 Signature *[Stable]* | filterSignature |
| Get concordant signatures from iLINCS database *[Stable]* | getConcordants |
| Get the L1000 Signature from iLINCS *[Stable]* | getSignature |
| Investigate a given DGE dataset *[Stable]* | investigateSignature |
| Investigate concordant signatures for a gene or drug *[Stable]* | investigateTarget |
| Prepare an L1000 Signature from a given differential gene expression output *[Stable]* | prepareSignature |
