API for claraqin/neonMicrobe
Downloading, Pre-processing, and Assembling NEON Soil Microbe Marker Gene Sequence Data
| Global functions | |
|---|---|
| .onAttach | Source code |
| NEONMICROBE_DIR_BASE | Man page Source code |
| NEONMICROBE_DIR_BATCHES | Man page Source code |
| NEONMICROBE_DIR_MIDPROCESS | Man page Source code |
| NEONMICROBE_DIR_OUTPUTS | Man page Source code |
| NEONMICROBE_DIR_SEQMETA | Man page Source code |
| NEONMICROBE_DIR_SEQUENCE | Man page Source code |
| NEONMICROBE_DIR_SOIL | Man page Source code |
| NEONMICROBE_DIR_TAXREF | Man page Source code |
| NEONMICROBE_DIR_TRACKREADS | Man page Source code |
| assign_final | Man page Source code |
| checkArgsAgainstBatchParams | Man page Source code |
| collapseNoMismatch2 | Man page |
| combineReadTrackingTables16S | Man page Source code |
| combineReadTrackingTablesITS | Man page Source code |
| cumulativeExpectedErrors | Source code |
| downloadRawSequenceData | Man page Source code |
| downloadRawSoilData | Man page Source code |
| downloadSequenceMetadata | Man page Source code |
| downloadSoilData | Man page Source code |
| getBatch | Man page Source code |
| getBatchParam | Man page Source code |
| getN | Man page Source code |
| getPairedFastqFiles | Man page Source code |
| getSampleName | Man page Source code |
| getTruncationLength | Man page |
| listBatches | Man page Source code |
| loadParams | Man page Source code |
| makeDataDirectories | Man page Source code |
| matchFastqToMetadata | Man page Source code |
| newBatch | Man page Source code |
| organizeRawSequenceData | Man page Source code |
| parseParamsFromRownames | Man page Source code |
| plotEEProfile | Man page Source code |
| qcMetadata | Man page Source code |
| qualityFilter16S | Man page Source code |
| qualityFilterITS | Man page Source code |
| readSequenceMetadata | Man page Source code |
| removeUnpairedFastqFiles | Man page Source code |
| remove_unmatched_files | Man page Source code |
| runDada16S | Man page Source code |
| runDadaITS | Man page Source code |
| saveParams | Man page Source code |
| seqmeta_greatplains_16s | Man page |
| seqmeta_greatplains_its | Man page |
| seqtab_greatplains_16s | Man page |
| setBaseDirectory | Man page Source code |
| setBatch | Man page Source code |
| setBatchParam | Man page Source code |
| soil_greatplains | Man page |
| trimPrimers16S | Man page Source code |
| trimPrimersITS | Man page Source code |
| validateIO | Man page Source code |
