Tag: Anomaly

SAD – Salmon Anomaly Detection

SAD

:: DESCRIPTION

SAD detects the potential misquantifications for the RNA-seq transcript expression estimation made by Salmon. SAD detects large deviation of the observed coverage distribution from the expected coverage distribution for each transcript, and use the deviation as an indicator of misquantifications.

::DEVELOPER

Kingsford Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / MacOs

:: DOWNLOAD

SAD

:: MORE INFORMATION

Citation

Cong Ma, Carl Kingsford (2019).
Detecting, categorizing, and correcting coverage anomalies of RNA-seq quantification.
Cell Systems, in press..

Pintail 1.1 – Analyse 16S rRNA Chimera & Anomalies

Pintail 1.1

:: DESCRIPTION

Pintail is a program for detecting and analysing 16S rRNA chimeras and other anomalies. Pintail is a tool for identifying anomalies, including chimeras, within 16S rDNA sequences. The program works by comparing evolutionary distances between a query and subject sequence over the length of the 16S rRNA gene (small subunit rRNA), by employing a sampling window of specified size, progressing a fixed number of bases at a time along the length of the gene.

::DEVELOPER

Dr Kevin Ashelford

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / Linux / Mac OsX
  • Java

:: DOWNLOAD

Pintail

:: MORE INFORMATION

Citation

KE Ashelford et al. (2005)
At least one in twenty 16S rRNA sequence records currently held in public repositories estimated to contain substantial anomalies
Applied and Environmental Microbiology, (12): 7724-7736.