Links
- Data analysis tools
- DAM (DOTUR-ARB Matching)
- DAM (DOTUR-ARB Matching) program matches a list of query sequences (belonging to a discrete group [i.e. phylum-level cluster] as determined by ARB) to a distance matrix determined OTU group encompassing all sequences in a given query list (as created by the DOTUR program). This allows determination of the percent sequence similarity at which groupings of sequences are identified as a discrete OTU.
- DOTMAN (DOTUR Manipulation)
- DOTMAN (DOTUR Manipulation) queries selected OTUs (based on DOTUR bins) against a sequence database and generate FASTA files from a user given file. The program is given a range of DOTUR distance values, a DOTUR list file, and a file in FASTA format containing the sequences corresponding to the ID’s in the list file. For each distance value d DOTMAN makes one FASTA file for each of the n largest OTUs. n is user set and less than or equal to the total number of OTUs for a distance d.
- Example datafiles from KBS-LTER papers:
- FinalSet5000
- Comlete list of sequences from GC fractionated clone library. Sequences can also be downloaded from Genbank using accession numbers EU352912-EU357802
- FinalSet500
- First 500 sequences from GC fractionated clone library.
- nonGC500
- Clone library sequences from non-GC fractionated library.
