DNA Chromatogram Explorer Lite
View, edit, and convert chromatograms. Trim low quality ends automatically.

Program description

DNA Chromatogram Explorer is a Windows Explorer clone dedicated to DNA sequence analysis and manipulation. You can view the chromatograms while browsing through folders using its integrated file explorer. With a single click you can trim the low quality bases at the end of your samples. The Lite version of Chromatogram Explorer is freeware.

With DNA Chromatogram Explorer you can:

• Display sample's content as you browse through your folders
• Highlight low quality regions
• Manually trim low quality end
• Automatically trim low quality ends (batch)
• Convert between miscellaneous formats
• View FASTA, SEQ, TXT samples
• View SCF, ABI, AB, AB!, AB1 samples
• View sample's properties & statistics
• View quality values
• Extract bases from chromatograms (copy to clipboard)
• Disk operations (delete samples, move, etc)
  

How to use it

Exploring your samples

Start DNA Chromatogram Explorer, and locate the folder that contains your samples files. All samples (ABI/SCF chromatograms or simple FASTA sequences) will be shown in the right panel. Low quality ends are shown in dark gray color.

Converting your samples

Press 'Convert' or 'Convert all' and your file will be saved as SCF or FASTA (you can choose the output format),

Automatic end trimming

If the 'Remove low quality ends' checkbox is active, the low quality bases at the end of the sample will be automatically trimmed.

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How to install it

DNA Chromatogram Explorer is delivered in a small package together with other free molecular biology tools. Download the package and double click it. The programs inside the package will be extracted to the destination folder (specified by you). Go to the destination folder and double click the program you want to use.

This software tool installs in any computer even if you don't have administrator rights.

Uninstall

As DNA Chromatogram Explorer installs zero files in your computer, you don't need to uninstall it. To uninstall the DNA Chromatogram Explorer, just delete it.

Name	Chromatogram Explorer Lite
Version	3.1
Date	28 April 2010
Package size	~ 5 MB
Download time	less than 12 seconds (for DSL)

Portability

This software tool is really small so you can easily copy it on a floppy disk or USB flash stick and take it with you or send it to your colleagues via email.

System requirements

DNA Chromatogram Explorer can run on any version of Windows from Windows 98 to Windows 7 and also on Mac via Parallels or Bootcamp. It does not install additional libraries, updates, DLL, Java or registry keys into your system.

Similar bioinformatics tools included in the package

Name	Icon	Description
DNA Baser Sequence Assembler		DNA Baser is a tool for DNA sequence assembly, DNA sequence analysis, contig editing, and mutation detection. It also offers a powerful chromatogram viewer/editor.
Command-line DNA Sample Converter		Convertrix is a molecular biology command line tool for converting between several popular DNA sample formats. It can automatically trim the untrusted regions (low quality bases) at the end of samples.
FASTA to multi-FASTA converter		FASTA to multi-FASTA is a freeware converter will merge the content of all FASTA files in the specified folder, in a single multi-FASTA file.
multi-FASTA to FASTA converter		multi-FASTA to FASTA is a freeware converter program will split a multi-FASTA file in multiple standard FASTA files.
ABI to FASTA converter		ABI to FASTA Converter is a free tool will convert all (selected) ABI files to FASTA files. All you need to do is to locate your ABI chromatogram files and press the CONVERT button.
Grid cell counter		Gird cell counter will help you to count faster the cells shown on computer's screen by displaying a grid over your image. Freeware.
GBK to FASTA converter		GenBank to FASTA is a freeware program will convert GenBank (gbk) file format to FASTA format.
DNA Counter		DNA Counter will show the proportions between nucleotides in a DNA sequence (GC to AT ratio).
Show Desktop		An enhanced replacement for the Show Desktop icon/command. It can also show the amount of free memory in your computer.