Man pages for DavidKLim/FSCseq
Feature Selection and Clustering of RNA-seq Count Data
| EM_run | EM/CEM run for FSCseq |
| E_step | Computes E step weights |
| FSCseq | Wrapper for main FSCseq function |
| FSCseq_predict | Prediction via FSCseq |
| FSCseq_predict_workflow | Minimal workflow for FSCseq_predict |
| FSCseq_workflow | Minimal workflow for FSCseq |
| glm.init | Initializes parameter estimates |
| glm.init_par | Parallelized glm.init |
| logsumexpc | Logsumexp technique to prevent underflow |
| M_step | Perform M step of EM algorithm |
| M_step_par | Parallelized M step (parLApply) |
| M_step_par2 | Parallelized M step (mclapply) |
| phi.ml | Estimates dispersion parameter phi |
| processData | Pre-process the count matrix |
| SCAD_soft_thresholding | SCAD soft thresholding function |
| simulate_counts | Simulate data with gene-wise dispersion parameters |
| simulateData | Simulate RNA-seq bulk gene expression count data |
| summary | Summarize FSCseq clustering results |
| theta.ml2 | Theta estimation with penalty |
