Man pages for lpantano/isomiRs
Analyze isomiRs and miRNAs from small RNA-seq
| counts | Accessors for the count matrix of a IsomirDataSeq object. |
| dat286.long | Data frame containing mirna from Argyropoulos's paper |
| design | Accessors for the 'design' slot of a IsomirDataSeq object. |
| ego | enrichResult class |
| findTargets | Find miRNAs target using mRNA/miRNA expression |
| gene_ex_rse | Data frame containing gene expression data |
| isoAnnotate | Annotate the rawData of the IsomirDataSeq object |
| isoCounts | Create count matrix with different summarizing options |
| isoDE | Differential expression analysis with DESeq2 |
| IsomirDataSeq | Class that contains all isomiRs annotation for all samples |
| IsomirDataSeqFromFiles | Loads miRNA annotation from seqbuster tool or pre-processed... |
| IsomirDataSeqFromMirtop | Import 'mirtop' output into 'IsomirDataSeq' |
| IsomirDataSeqFromRawData | Loads miRNA annotation from seqbuster tool or pre-processed... |
| isomiRs-package | isomiRs |
| isoNetwork | Clustering miRNAs-genes pairs in similar pattern expression |
| isoNorm | Normalize count matrix |
| isoPlot | Plot the amount of isomiRs in different samples |
| isoPlotNet | Functional miRNA / gene expression profile plot |
| isoPlotPosition | Plot nucleotides changes at a given position |
| isoSelect | Method to select specific miRNAs from an IsomirDataSeq... |
| isoTop | Heatmap of the top expressed isomiRs |
| ma_ex | Data frame containing gene-mirna relationship |
| mirData | Example of IsomirDataSeq with human brain miRNA counts data |
| mirna2targetscan | Find targets in targetscan database |
| mirna_ex_rse | Data frame containing mirna expression data |
| mirTritation | Data frame containing mirna from Argyropoulos's paper |
| updateIsomirDataSeq | Update IsomirDataSeq object from version < 1.7 |
