Man pages for Meiomap/SureTypeSCR
Library for (single-cell) SNP array processing
| calculate_ma | Calculate M (logarithmic difference) and A (logarithmic... |
| callrate | Calculates call rate as proportion of called SNPs in the... |
| configure_iaap | Procedure for setting path to IAAP-cli executable |
| create_dataobject_from_frame | Internal function for converting basic data frame from... |
| create_from_frame | Internal function for converting between python structures |
| getGEO_and_folder_in | Download item from the GEO database |
| get_multiind_df | Internal function that creates data frame with multiindex |
| get_simpleind_df | Internal function that creates data frame with simple column... |
| get_threshold | Determine threshold used on the data in data frame |
| idat_to_gtc | Convert raw itensity IDAT files to GTC using IAAP-cli |
| plot_ma | Create MA plot per individual. |
| plot_pca | Run and visualise PCA |
| predict_suretype | Run classification model using combination of Random Forest... |
| preprocess_pca | Internal function that calculates matrix for principal... |
| scbasic | Load data in GTC format into data frame |
| scEls | mediate access to python modules |
| scload | Load classifier from file |
| scpredict | Internal function used for prediction with... |
| scTrain | Internal function that fits parameters of GDA to given data |
| set_threshold | Set threshold on a classification method. |
| suretype_model | Create model and perform classification with RF-GDA in one... |
| write_samplesheet | Function creates samplesheet compatible with SureTypeSCR |
