hg clone https://testtoolshed.g2.bx.psu.edu/repos/crusoe/khmer
| Repository oxli_datatypes revision 08a714ff4ea5 owned by crusoe |
| Name | Version | Type | |
|---|---|---|---|
| khmer | 2.0rc1 | package | |
| Name | Description | Version | Minimum Galaxy Version |
|---|---|---|---|
| Separate sequences that are annotated with partitions into grouped files. | 2.0rc1-1 | any | |
| Filters a fastq/fasta file using digital normalization via median k-mer abundances. | 2.0rc1-1 | any | |
| Trims fastq/fasta sequences at k-mers of a given abundance based on a provided k-mer counting table. | 2.0rc1-1 | any | |
| Trims fastq/fasta sequences at k-mers with abundance below 50 based on a provided k-mer counting table. | 2.0rc1-1 | any | |
| Calculate abundance distribution of the k-mers in a given sequence file using a pre-made k-mer counting table. | 2.0rc1-1 | any | |
| Count the median/avg k-mer abundance for each sequence in the input file, based on the k-mer counts in the given k-mer counting table. Can be used to estimate expression levels (mRNAseq) or coverage (genomic/metagenomic). | 2.0rc1-1 | any | |
| Calculate abundance distribution of the k-mers in a given sequence file. | 2.0rc1-1 | any | |
| Load, partition, and annotate FAST[AQ] sequences | 2.0rc1-1 | any | |