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Video talks
on 16S data analysis posted.
URMAP
ultra-fast read mapper posted (
paper)
.
~20% of taxonomy annotations in SILVA and Greengenes are wrong (
paper
).
Taxonomy prediction is <50% accurate for 16S V4 sequences (
paper
).
97% OTU threshold is wrong for species, should be 99% for full-length 16S, 100% V4 (
paper
).
USEARCH
Download 32-bit
Buy 64-bit
New in v11
Tech support
Documentation
Commands
Topics
OTU analysis
Sequence search
Sequence clustering
Taxonomy
Diversity
Octave plots
Machine learning
Chimeras
Read quality
Paired reads
OTU errors and biases
Publications
File formats
Commands to convert file formats
FASTA files
FASTQ files
FASTQ file format options
Phred (Quality) scores in FASTQ files
Calculating average Phred (Q) scores is a bad idea
Sequence labels
Annotations in sequence labels
Sequence database files
IUPAC codes for sequence wildcard letters N, X etc.
Why doesn't USEARCH support gzipped FASTQ files?
SAM files
CIGAR strings in SAM files
USEARCH Database (UDB) files
Mothur file formats
QIIME file formats
OTU table file formats
NAST multiple alignment files (nastout)
Newick tree format
Metadata file