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Denoising
Recommended procedures for OTU / denoising analysis
Should I make OTUs using UPARSE (cluster_otus) or UNOISE (unoise3)?
Denoising non-Illumina reads (455, PacBio, Ion Torrent, Nanopore)
What is the "shifted sequences" warning?
Reseek
Structure alignment and search
More accurate than TM-align,
DALI and Foldseek
Open-source USEARCH
Fast sequence search, clustering, amplicon OTU and ASV analysis
MUSCLE v5
State of the art MSA
Recent updates
🔎 Reseek structure search
AFDB, BFVD & PDB >
📝 Preprint shows structure
E-values wrong by orders of magnitude >
🧬 Assembly and search for entire SRA >
🚀 Open-source USEARCH >
🎯 Looking for new projects / collaborations >
Search the AlphaFold DB online in seconds >
