2. • Introduction
• Note
• Importance
• Features
• Working
• Conclusion
3. • With over 60,000 downloads to date, Geospiza’s FinchTV
is the popular way to view DNA sequence traces on
Linux, Mac OSX, Windows, and Solaris. FinchTV started
as the only chromatogram viewer that can display an
entire trace in a scalable multi-pane view. And it leads the
way with raw data views, BLAST searching and the
ability to reverse complement sequences and traces.
4.
5. • FinchTV allows the user to see their chromatogram
along with the nucleotide base assigned to each peak but
does not give a confidence value for each base. Phred
allows the user to do high throughput analysis but in
doing so doesn't allow the user to see each
chromatogram. Phrap assembles multiple reads of the
same sequence into a single sequence.
6. 1. FinchTV is not a base caller. It can only show base calls
that are either added by a DNA sequencing instrument or by
base calling programs like phred (scf files).
2. FinchTV can show quality values. If a labs has an ABI 3730
and uses KB base caller, then the .ab1 files will contain quality
values and these will be displayed in FinchTV.
Alternatively, if a lab uses phred for base calling and makes
scf files with quality values, FinchTV will display those quality
values.
I have some blog posts here that show screen shots of how
this works and how phred compares with the KB base caller
at:
7. • The program has the following features:
• Reads chromatogram files in the most popular chromat formats.
• Displays quality values above the trace (when available).
• Displays the base sequence in multi-colour above the trace along with
their positions in the sequence.
• Allows adjustment of vertical and horizontal scales.
• Allows display of the chromatogram trace as a single pane or in a
wrapped view.
• Allows you to view the DNA sequence in the Chromatogram Info dialog
and additional chromatogram data details when available.
• Provides you with the ability to print out your trace all on one page or
with a set number of panels per page.
• Gives the option of exporting the DNA sequence to a FASTA formatted
text file.
8. • How does this work?
1. Log in to your Finch account. Open a chromatogram in
FinchTV either by clicking the FinchTV icon or the link
from the Chromat Read page that says Open in FinchTV
2. When you're ready to enter information, click the
Commit button (outlined below).
9.
10. • FinchTV is an important software and students use this
software to enter their blast results in to iFinch. This has
been preety helpful. The data get stored for each
chromatogram and we can all view the results.
