×
Submit new tools
Share tools covering the current topic. Provide easy-to-follow guidelines to improve their usability.

Variant detection (Sanger sequencing analysis)

Variant detection tools for Sanger sequencing analysis.

PolyPhred
Desktop

PolyPhred

Compares fluorescence-based sequences across traces obtained from different…

Compares fluorescence-based sequences across traces obtained from different individuals to identify heterozygous sites for single nucleotide substitutions. PolyPhred is not a standalone application.…

DnaSP
Desktop

DnaSP

A software package for the analysis of nucleotide polymorphism from aligned DNA…

A software package for the analysis of nucleotide polymorphism from aligned DNA sequence data.

novoSNP
Desktop

novoSNP

A software package that conscientiously discovers single nucleotide…

A software package that conscientiously discovers single nucleotide polymorphisms (SNPs) and insertion-deletion polymorphisms (INDELs) in sequence trace files in a fast, reliable, and user-friendly…

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…

GLASS
Web

GLASS

Reports sequence variants from Sanger sequence trace data in a standardized way…

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…

DiSNPindel
Desktop

DiSNPindel

A computation tool to improve the detection of intra-individual SNPs and InDels…

A computation tool to improve the detection of intra-individual SNPs and InDels in direct amplicon sequencing of a diploid. Neither reference sequence nor additional sample was required. Using two…

PrimeIndel
Web

PrimeIndel

A software tool used for aligning multiple overlapping sequence reads by…

A software tool used for aligning multiple overlapping sequence reads by in-silico doubly heterozygous sequence (DHS) formation. The indel size of the in-silico formed DHS indicates the positions in…

PineSAP
Desktop

PineSAP Pine Alignment and SNP Identification Pipeline

Provides a high-throughput solution to single nucleotide polymorphism (SNP)…

Provides a high-throughput solution to single nucleotide polymorphism (SNP) prediction using multiple sequence alignments from re-sequencing data. This pipeline integrates a hybrid of customized…

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…

AutoCSA
Desktop

AutoCSA Automatic Comparative Sequence Analysis

A mutation detection program designed to detect small mutations (1-50 bases) in…

A mutation detection program designed to detect small mutations (1-50 bases) in sequence traces. AutoCSA is capable of detecting both homozygous and heterozygous base substitutions, as well as small…

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…

Poly Peak…
Desktop
Web

Poly Peak Parser

An online tool that is able to separate chromatogram data containing ambiguous…

An online tool that is able to separate chromatogram data containing ambiguous base calls into wild-type and mutant allele sequences, revealing the nature of the indel from a single sequencing run…

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…

Indigo
Web
Desktop

Indigo Indigo

Discovers mutations generated by genome editing tools such as CRISPR/Cas9, ZNFs…

Discovers mutations generated by genome editing tools such as CRISPR/Cas9, ZNFs or TALENs. Indigo is a rapid single nucleotide polymorphism (SNP) & Insertion-Deletion (InDel) discovery method in…

PeakHeights
Desktop

PeakHeights

A tool for detecting germline microsatellite instability in mismatch…

A tool for detecting germline microsatellite instability in mismatch repair-deficient subjects. PeakHeights can quickly and simply determine a parameter called the gMSI ratio, based on alterations in…

Variant…
Desktop

Variant Reporter Software

The robust algorithms will call SNPs, mutations, insertions, deletion and…

The robust algorithms will call SNPs, mutations, insertions, deletion and heterozygous insertions⁄deletions for data generated using the Applied Biosystems Genetic Analyzers.

InSNP
Desktop

InSNP

Detects substitution and indel SNPs in sequencing traces. InSNP uses simple…

Detects substitution and indel SNPs in sequencing traces. InSNP uses simple algorithms to detect the mutations and presents the sequences in compact visualizations that let you quickly decide which…

Information

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