RDP Staff's repositories
classifier
RDP extensible sequence classifier for fungal lsu, bacterial and archaeal 16s
Xander_assembler
A gene-targeted assembler tool
fungene_pipeline
Scripts and resources for analyzing sequence data for select eco-functional genes
EcoFunPrimer
primer design pipeline
TaxonomyTree
TaxonomyTree building and traversal utility classes.
gfclassify
Gene Family Classifier allows for fast and accurate classification of amplicon (or open reading frame) nucleotide sequences.
AbundanceStats
Java code for various ecological abundance statistics
Clustering
RDP memory-constrained hierarchical clustering tools.
ProbeMatch
Tools for finding (and removing) DNA/RNA primers in sequence reads.
SequenceMatch
K-mer based sequence matching tool
AlignmentTools
Tools for pairwise sequence comparison, distance calculation, and hidden markov model sequence scoring (using HMMER3 models). Many RDP Projects require this package.
FungeneUtils
FungeneUtils package
kb_rdptools
kbase app for rdp classifier
KmerFilter
Tools for kmer analysis.
SeqFilters
Java filtering framework for sequence data
SOAP-examples
Code samples from various languages for interacting with RDP soap services