Online

Reports sequence variants from Sanger sequence trace data in a standardized way as recommended by the Human Genome Variation Society (HGVS). GLASS is an intuitive way for novice and experienced users to discover and assess gene variations. GLASS is a bioinformatic implementation of best practices of labs with published know-how in the analysis of many clinically relevant genes.

User report

0 user reviews

0 user reviews

No review has been posted.

GLASS forum

No open topic.

GLASS classification

GLASS specifications

Software type:
Package
Restrictions to use:
None
Input format:
ABI
Computer skills:
Basic
Stability:
Stable
Interface:
Web user interface
Input data:
A minimap with alignment of exons and introns of the reference gene, a chromatogram plot, a variants table
Programming languages:
R
Version:
0.2.9
Requirements:
Shiny

GLASS support

Maintainer

Credits

Publications

  • (Pal et al., 2016) GLASS: assisted and standardized assessment of gene variations from Sanger sequence trace data. bioRxiv.
    DOI: 10.1101/088401

Institution(s)

Central European Institute of Technology, Masaryk University, Brno, Czech Republic; Hematology Department and HCT Unit, G. Papanicolaou Hospital, Thessaloniki, Greece; Institute of Applied Biosciences, Center for Research and Technology Hellas, Thessaloniki, Greece; Division of Molecular Oncology and Department of Onco-Hematology, IRCCS San Raffaele Scientific Institute and Università VitaSalute San Raffaele, Milan, Italy; University Hospital Brno, Brno Czech Republic

Funding source(s)

This work was supported by the Faculty of Medicine, Masaryk University (projects CEITEC 2020 (LQ1601) and TEO2000058/2014-2019); the European Union’s Horizon 2020 n°692298; the Ministry of Health of the Czech Republic (grant n°16-34272A); the project MEYS - NPS I - LO1413.

Related Variant detection tools

Most Recent Tools

VarDetect
Desktop

VarDetect

Detects single nucleotide polymorphisms (SNPs) efficiently from fluorescence…

Detects single nucleotide polymorphisms (SNPs) efficiently from fluorescence based chromatogram data and interprets fluorescence based chromatograms and efficiently detect the corresponding…

CHILD
Web

CHILD

A computer program for the detection of small sub-populations of molecules…

A computer program for the detection of small sub-populations of molecules carrying indels using ABI trace files. CHILD compares the sequence of the strongest base calls at each position with the…

GeneScreen
Desktop

GeneScreen

A desktop program that analyses capillary electropherograms and compares their…

A desktop program that analyses capillary electropherograms and compares their sequences with a known reference for identification of mutations. The detected sequence variants are then made available…

QSVanalyser
Desktop

QSVanalyser

Allows high-throughput quantification of the proportions of DNA sequences…

Allows high-throughput quantification of the proportions of DNA sequences containing SNVs. In reconstruction experiments, QSVanalyzer accurately estimated the known relative proportions of SNVs. By…

11 related tools

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.