Man pages for momeara/CalCEN
CalCEN: Estimate Co-Expression Networks
| date_code | create date code of the form YYYYMMDD inputs: d (optional):... |
| download_expression_data | Download RNA-Seq expression runs from SRA |
| estimate_expression | Estimate expression data from SRA run and reference genome |
| get_sra_connection | Get connection to the sequence read archive database |
| load_parameters | Load parameters |
| prepare_reference_genome | Use RSEM to prepare reference genome |
| read_biogrid_tab2 | parse BioGRID tab2 format |
| retrieve_sra_runs | Retrieve SRA runs from the SRAmeta database |
| submit_estimate_expression_slurm | Submit estimate gene expression job to SLURM cluster |
| validate_downloaded_runs | Check that the downloaded runs are not corrupted |
| validate_estimated_runs | Validate estimated expression runs |
