Man pages for RNAprobR
An R package for analysis of massive parallel sequencing based RNA structure probing data
| bam2bedgraph | Function converts bam file to bedgraph by counting number of... |
| BED2txDb | Bedgraph to TranscriptDb object |
| bedgraph2norm | Import bedgraph to GRanges |
| comp | Arranging information from GRanges produced by readsamples()... |
| compdata | Create or extend norm_GR GRanges using Comp_GR GRanges |
| correct_oversaturation | Correcting EUC of oversaturated fragments. |
| dtcr | Calculate deltaTCR. |
| GR2norm_df | Export normalized GRanges object to data frame |
| k2n_calc | Calculate number of Estimated Unique Counts (EUC's)... |
| norm2bedgraph | Exporting data in norm_df data frame (product of dtcr,... |
| norm_df2GR | Function to convert norm_df data frame (product of... |
| plotReads | Plotting ranges from GRanges |
| plotRNA | Plot normalized values over transcript positions |
| readsamples | Import of tables prepared by Galaxy workflow to R environment |
| slograt | Smooth Log2-ratio |
| swinsor | Smooth Winsorization |
| swinsor_vector | Smooth Winsor Normalization |
| winsor | Winsor normalization with fitting to <0,1> range. |
