Nextflow Modules
Showing module(s) with keyword "transcriptomics"
| Module | Keywords | Description |
|---|---|---|
| nf-core/anndata/barcodes | single-cell barcodes anndata subsetting transcriptomics | Module to subset AnnData object to cells with matching barcodes from the csv file |
| nf-core/proseg/proseg | segmentation spatial transcriptomics | Proseg (probabilistic segmentation) is a cell segmentation method for in situ spatial transcriptomics. |
| nf-core/proseg/proseg_to_baysor | segmentation spatial transcriptomics | Convert proseg outputs to baysor format for import to Xenium explorer |
| nf-core/rtn/tni | regulatory network transcriptomics transcription factors | Uses the RTN R package for transcriptional regulatory network inference (TNI). |
| nf-core/scds | doublet single-cell transcriptomics | Module to use scds for doublet scoring |
| nf-core/spotiflow | imaging image microscopy transcriptomics spatial spot detection | Spotiflow, accurate and efficient spot detection with stereographic flow. |
| nf-core/telescope/assign | EM single-locus transcriptomics | The telescope assign program finds overlapping reads between an alignment (SAM/BAM) and an annotation (GTF) then reassigns reads using a statistical model. |
| nf-core/tetranscripts | transposable TE transcriptomics | Runs TEtranscripts which summarises transposable element content of a bam file. |