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Table 3 Comparison of various features between ClinQC and QC tools

From: ClinQC: a tool for quality control and cleaning of Sanger and NGS data in clinical research

Features ClinQC v1.0 CANGS v1.1 TagCleaner v0.16 SolexaQA v3.1.3 FASTX-Toolkit v0.0.13 TagDust PRINSEQ v0.20.4 FastQC v0.11.3 NGSQCTookit v2.3.3 QC-Chain v1.0
Analysis of several datasets in a single run yes no no no no no no no no yes
Analysis of all platforms in single runa yes no no no no no no no no no
Virtual Machinea yes no no no no no no no no no
Sanger format conversiona yes no no no no no no no no no
Sanger base callinga yes no no no no no no no no no
Sanger QCa yes no no no no no no no no no
Sanger primer trimminga yes no no no no no no no no no
Installation required no yes yes yes yes yes yes no no yes
Supported sequencing platforms Sanger, Illumina, 454, Ion torrent 454 Illumina, 454 Illumina Illumina Illumina, 454 Illumina, 454 any in FASTQ format Illumina, 454 NGS
Parallel processing yes no no no no yes no yes yes yes
Format conversion yes no no no yes no no no yes yes
Primer/Adapter trimming yes yes yes no yes yes no no yes yes
Ns trimming yes yes yes no no yes yes no yes yes
Demultiplexing yes yes yes yes yes yes no no no yes
Detection of file format yes no no yes no no yes no yes yes
Dependencies yes yes no yes yes no yes no yes no
Graphical QC report yes no no yes yes no yes yes yes yes
Duplicate removal yes no yes no yes no yes no no yes
Contamination filtering yes no yes no no yes yes no no yes
GC content assessment yes no yes no yes no yes yes yes yes
  1. aFeatures are unique in ClinQC