AmpliSAT specifications

Information


Unique identifier OMICS_10988
Name AmpliSAT
Alternative name Amplicon Sequencing Analysis Tools
Software type Toolkit/Suite
Interface Web user interface
Restrictions to use None
Input data Reads
Input format FASTQ/FASTA
Output data Analysis results
Output format Excel file, FASTA files
Biological technology Illumina, Life Technologies, Roche
Programming languages Javascript, Perl
Parallelization Other
Computer skills Basic
Stability Stable
Maintained Yes

Subtools


  • AmpliCANCER
  • AmpliCDR3
  • AmpliCHECK
  • AmpliCLEAN
  • AmpliCOMBINE
  • AmpliCOMPARE
  • AmpliHLA
  • AmpliLEGACY
  • AmpliMERGE
  • AmpliMIX
  • AmpliSAS
  • AmpliSIM
  • AmpliTAXO
  • AmpliTCR

Documentation


Maintainer


  • person_outline Alvaro Sebastian

Information


Unique identifier OMICS_10988
Name AmpliSAT
Alternative name Amplicon Sequencing Analysis Tools
Software type Toolkit/Suite
Interface Command line interface
Restrictions to use None
Biological technology Illumina, Life Technologies, Roche
Operating system Unix/Linux
Programming languages Javascript, Perl
Parallelization Other
Computer skills Advanced
Stability Stable
Maintained Yes

Subtools


  • AmpliCANCER
  • AmpliCDR3
  • AmpliCHECK
  • AmpliCLEAN
  • AmpliCOMBINE
  • AmpliCOMPARE
  • AmpliHLA
  • AmpliLEGACY
  • AmpliMERGE
  • AmpliMIX
  • AmpliSAS
  • AmpliSIM
  • AmpliTAXO
  • AmpliTCR

Versioning


No version available

Documentation


Maintainer


  • person_outline Alvaro Sebastian

Publications for Amplicon Sequencing Analysis Tools

AmpliSAT citations

 (2)
library_books

Genotyping strategy matters when analyzing hypervariable major histocompatibility complex‐Experience from a passerine bird

2018
Ecol Evol
PMCID: 5792522
PMID: 29435243
DOI: 10.1002/ece3.3757

[…] called only when using the modified Sommer pipeline had high sequence similarities to other alleles (see Appendix ). Clustering of similar alleles may thus not account for all the instances in which AmpliSAS genotyped fewer alleles.Second, the use of replicates could be an additional explanation for the higher number of alleles called when using the modified Sommer pipeline. In the AmpliSAS pipel […]

library_books

Characterization of MHC class I in a long distance migratory wader, the Icelandic black tailed godwit

2017
Immunogenetics
PMCID: 5486808
PMID: 28534224
DOI: 10.1007/s00251-017-0993-7

[…] For bioinformatic post-processing of HTS data, we used the Amplicon Sequencing Analysis Tools (AmpliSAT) (web server http://evobiolab.biol.amu.edu.pl/amplisat/; Sebastian et al. ) for demultiplexing, clustering, and filtering. Clustering and filtering to remo […]

AmpliSAT institution(s)
Evolutionary Biology Group, Faculty of Biology, Adam Mickiewicz University, Poznan, Poland
AmpliSAT funding source(s)
Supported by MAESTRO grant UMO-2013/08/A/NZ8/00153 from National Science Centre.

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