Man pages for suvarzz/MNuc
MNuc
| avg.timeseries.plot | Calculate matrix of averages from meandat files and plot in... |
| bamcov.plot | Bam Coverage Statter Plot |
| bdg.binned.average | Binned average from bedgraph file |
| bdg.norm | Normalize bed graph files |
| check.coord | Check coordinates in dat files. |
| combine.heatmaps | Combine heatmaps png into one image |
| coverage.plot | Coverage plot |
| features.avg.plot | All features averages plot |
| features.box.plot | All features box plot |
| find.norm.k | Calculate normalizing coefficients |
| genelength.from.sgd | Get lengths of genes from SGS txt file |
| get.signal | Get signal |
| gr.extend | Extend Genomic Range depending on strand |
| gr.extend.reads | Extend GRange and trim |
| heatmap.win.avg | Heatmap of binned averages from bedgraph files |
| meta.ars | ARSs regions for metaplot |
| meta.data | Meta data generator |
| meta.mean | Mean data file generator for meta plot. |
| meta.plot | TSS & ARS regions for metaplot These functions allows to... |
| meta.tss | TSSs regions for metaplot |
| mxkmink | Find normalizing coefficients based on Nucleosome Free... |
| mxl | Create list of matrices from several experiments. Create list... |
| mxl.dotplot | Dot plot from list of matrices. Take list of matrices and... |
| norm.mean.dat | Split files in a directory into groups |
| read.csv.gr | Import csv to genomic ranges |
| read.data.table | Data table from text file |
| saveGR | Save Genomic Range as a csv file. |
| saveGRlist | Save Genomic Ranges List as a set of csv files. |
| seqlevels.from.chrsizes | Get seqlevels from chromosome sizes txt file |
| setmin.dat | Normalize data in data frame to minimal value (Null value) by... |
| setmink2.dat | Normalize data in data frame to minimal value (Null value) by... |
| setmink.dat | Normalize data in data frame to minimal value (Null value) by... |
| split_intergenic | Split intergenic regions and save as csv genomic ranges:... |
| write.mean.dat | Write mean dat file. |
