Description Usage Arguments Value Examples
Function used to import transcripts count and abundance data
1 2 |
path |
path to files, or vector of paths,
if |
source |
quantification method used. Currently supported: "salmon", "kallisto". If method is unknown use "none". |
accession |
source of gene names identifier supported formats:"vectorbase", "gene", "custom" If using "gene", the trancript names will be used as genes; If using "custom", a conversion table should be provided in the gene_table parameter; not supported yet: "ensembl", "ncbi", "custom" |
is_dir |
if |
names |
.vector of names to be used to each sample; default = NULL |
gene_table |
a transcript to gene conversion table, where the first column should be transcript name and the second column should be gene name, should only be used with accession = "custom" |
A txi
object containing
1 2 3 4 5 | ## Not run:
# Example with path to folder input
imported_transcripts <- import_tx("data/salmon/quants/")
## End(Not run)
|
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