Package: GESE 2.0.1
Dandi Qiao
GESE: Gene-Based Segregation Test
Implements the gene-based segregation test(GESE) and the weighted GESE test for identifying genes with causal variants of large effects for family-based sequencing data. The methods are described in Qiao, D. Lange, C., Laird, N.M., Won, S., Hersh, C.P., et al. (2017). <doi:10.1002/gepi.22037>. Gene-based segregation method for identifying rare variants for family-based sequencing studies. Genet Epidemiol 41(4):309-319. More details can be found at <http://scholar.harvard.edu/dqiao/gese>.
Authors:
GESE_2.0.1.tar.gz
GESE_2.0.1.tar.gz(r-4.5-noble)GESE_2.0.1.tar.gz(r-4.4-noble)
GESE_2.0.1.tgz(r-4.4-emscripten)GESE_2.0.1.tgz(r-4.3-emscripten)
GESE.pdf |GESE.html✨
GESE/json (API)
| # Install 'GESE' in R: |
| install.packages('GESE', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 7 years agofrom:3de6049749. Checks:OK: 1 WARNING: 1. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Aug 22 2024 |
| R-4.5-linux | WARNING | Aug 22 2024 |
Exports:condSegProbFGESEgetSegInfotrim_oneLineagetrim_unrelated
Dependencies:evaluatehighrkinship2knitrlatticeMatrixquadprogxfunyaml
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Gene-Based Segregation Test | GESE-package |
| Computes conditional segregation probability for the family | condSegProbF |
| database file in example | database |
| dataRaw - a data frame containing the pedigree, phenotype and genotype information | dataRaw |
| Gene-Based Segregation Test | GESE |
| GESE package internal functions | GESE-internal functions |
| Computes segregation information for different mode of inheritance. | getSegInfo |
| mafInfo - example data | mapInfo |
| pednew - an example pedigree structure | pednew |
| Trims the pedigree structure to include one lineage only. | trim_oneLineage |
| Trims the pedigree structure to exclude multiple founder cases | trim_unrelated |