MetaAmp Changelog

We are keeping updating metaamp to keep up with the latest methods and user request. Please check the logs for the new features

MetaAmp version 3.0 update and major bug fixing - 2020-08-20

  • In the previous version: Taxonomy distribution summary, otu and taxonomy distribution summary, and otu and taxonomy distribution summary: relative abundance was wrong. It has been fixed

MetaAmp version 3.0 update and bug fixing - 2020-04-28

  • Fixed metaerg asv analysis failure problem when the input sequences are from two different runs
  • Fixed the JobInfo.txt missing problem when running metaamp from command line
  • Disabled otu.association calculation functions

MetaAmp version 3.0 update and bug fixing - 2020-03-24

  • Fixed email sending failure problem
  • In the result page that metaamp generated right after the job submission, the "Number of fastq file" was constantly 48. It has been fixed

MetaAmp version 3.0 is out - 2020-03-12

  • Integrated DADA2 ASV infering method into MetaAmp pipeline, which enables users to analyze their data using OTU-based method or ASV-based method online.
  • In the MetaAmp ASV analysis component, the alpha-diversity, beta-diversity generation, and taxonomy assignment are all achived using Mothur.
  • MetaAmp can take the either compressed (gz) or uncompressed sequence files included in the sequence archive.
  • Added more interactive visualizations such as heatmap and bubble plot for the multidimensional data summary table
  • Updated interactive Alpha diversity index visualization: added 95% confidence interval in the visualization
  • Updated the taxonomic reference database from Silva version 132 to 138
  • Added a lot interactive popup information boxes on the html input interface

Last updated: 2018-10-10

  • Upgrade the taxonomic classification database from silva version 123 to 132

MetaAmp 2.0 is out - 2017-01-05

  • Added "Marker gene type" option in the interface. User can upload either ssu rRNA gene or other genes
  • Added "Similarity cutoff" options for the otu clustering threshold. the default is 0.97
  • Deleted "Truncate the reads at the first phred score" options
  • Added "Hypothesis Testing" results to the analysis results, the current available hypothesis tests are parsimony, unifrac.weighted, unifrac.unweighted, AMOVA, HOMOVA
  • re-organized the metaamp analyis results page

MetaAmp 1.3 is out - 2016-09-14

  • Fixed the subsampleing bugs. In the previous version, after sub-sampling, otu ids in the newly generated shared file cannot be related back to the original otu ids in the original shared file without subsampling.

Last updated: 2016-07-29

  • Make the excluding of the chloroplast and mitochondria 16s rRNA sequences as one option dring the analysis. The default options is to keep them
  • Upgrade the taxonomic classification database from silva version 119 to 123

Last updated: 2016-05-26

  • Fixed most of the Eukaryota only be classified to phylum level issues

MetaAmp1.2 is out - 2015-07-02

  • Provided subsampling/normalized alpha, beta diversity output. Very often, each sample has different number of sequences. Sub-sampling is to randomly draw the same number of sequences from each sample.
  • Provided more informative error message when the job failed

MetaAmp1.1 is out - 2015-03-26

  • Can accept fasta format sequences without quality files
  • The orientation of the reverse primer is from 5' to 3' instead of reverse compliment of the reverse primer
  • Fixed the rarefaction curve visualization bugs
  • Added system error notification method. when a job fails, MetaAmp will send user and administrator messages
  • Forked a new process for doing system call and closed STDOUT and other filehandles and return to user.
  • Removed "Trim amplicon to a fixed length:" option for paired-edn reads quality filtering
  • Removed "Truncate the reads at the first phred score" field for the paired end reads merging