Download FinchTV for MacOS X. Go to your Downloads Folder. Hold the control key down and right click the file name (FinchTV) 4. Choose Open (it’s the middle button). Newer MacOSX operating systems (Catalina, etc) prevent you from installing apps that haven't come from the Apple store. Since FinchTV is an older program, you need to. FinchTV is the popular way to view sequence traces on Linux, Mac OSX, and Windows. FinchTV is the only trace viewer that can display an entire trace in a scalable multi-pane view. FinchTV reads chromatogram files from the most popular formats. In addition to displaying a multi-color sequence above the trace, FinchTV displays quality values (when available). 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 multipane view. It continues to lead with raw data views, regular expression searching, and multi-platform. Download FinchTV 1.4.0 for Windows free from SoftPlanet. Analyze DNA sequences with this app that presents them as graphs. FinchTV is made by Geospiza. 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. Finch TV for PC and MAC OSX is available at. Download 4Peaks - A link to download a free DNA sequence waveform reader for Macs. Download FinchTV - A link to download a free DNA sequence waveform reader for Macs. DNAApp - A link to download a free DNA sequence waveform reader for iPhones and iPads.
This page contains links to student and teacher materials for the 2021-2021 Waksman Student Scholars Program (WSSP). This information is intended only for the faculty and students participating in the WSSP during the 2021 summer Institutes and throughout the 2021-2022 academic year. This material is not intended for general public use and access to many of the links is password protected. The material on these pages is provided for educational purposes only. Unauthorized use of this material is prohibited. If you wish to download the files or have comments or questions about the material please contact Sue Coletta, Waksman Institute, Rutgers University.
You must have a 2021 AY DSAP Username and Password to access WSSP lectures, lab notes, and video files. Connect here to register
Student Links - Lecture notes, laboratory protocols, powerpoint files (without clicker questions), equipment and supply lists, MSDS sheets
Teacher Links - Powerpoint files with clicker questions, Problem Sets, Answer keys
Videos - WSSP laboratory videos, YouTube and CSHL videos for project background
Toolbox - A program to translate a DNA sequence into protein sequences in one of three reading frames
Download 4Peaks - A link to download a free DNA sequence waveform reader for Macs
Download FinchTV - A link to download a free DNA sequence waveform reader for Macs
DNAApp - A link to download a free DNA sequence waveform reader for iPhones and iPads
Equipment - Equipment needed to conduct the WSSP research project with suggested models and vendors
Supplies - Supplies needed to conduct the WSSP research project with suggested order numbers and vendors
Publications - Publications Associated with the WSSP
Media Links - Recent stories and videos about the WSSP and its students and teachers
Amino Acid Game - An online game to learn the structure and difference in the amino acids
Dot Plotter - An online program to compare two sequences
My Name is Charles Darwin - A game to write names or text in a DNA sequence using the amino acid code
Chromatogram Trace Viewers
These programs are limited in scope but serve a good purpose in evaluating the quality of data produced by allowing users to view the raw data associated with .ab1 files.
FinchTV (Windows/OSX)
From the makers of our data management system. Displays quality scores and much more. We really like the feature that links directly to NCBI for a BLAST search! What is more the application is FREE!
4Peaks (OSX Only)
Written to run natively on OSX and makes full use of the OSX interface. The application has lots of features and is more than just a “chromatogram viewer”. The best feature is the application is totally FREE! The same people have other OSX applications that might be useful for scientists.
ABI Seq Scape(Windows)
Another free viewer. This program is provided by the maker of the machine we run your samples on.
Chromas LITE (Windows Only)
This application will allow PC users to display, edit and print Applied Biosystems chromatogram files. You can even translate the sequence and reverse complement it! There is a ‘Pro’ version with more features.
Traceviewer(Windows/OSX/Linux)
This is a Java program that allows the reading of sequence traces from ABI or SCF files, the display of traces on white or black background and the display of Phred quality values as bars or numbers with one of three different color schemes. TraceViewer is free for academic users. Traceviewer for the Macintosh does not suffer from the same problem as Editview.
Contig Assembly and Sequence Alignment
These software packages can be used to view, edit, assemble, align, BLAST and even design primers. Some of the programs have phylogenetic analysis software built in as well! For more information, click on the links below.
Proprietary Software:
Proprietary software may cost more, but it also tends to be more current and offers long term and ongoing support.
- CLCbio DNA Workbench (Windows/OSX/Linux) Available for use on workstations in our facility
- Bioinformatics Toolbox 3.1 for MATLAB (Windows/OSX/Linux)
- CodonCode Aligner (Windows/OSX)
- Geneious(Windows/OSX/Linux)
- iNquiry (OSX Server/Unix/Linux)
- Lasergene (Windows/OSX)
- Sequencher (Windows/OSX) v4.2 available on Mac workstations in our facility
Free and Open Source Software:
Free, customizable and often times you can examine the source code. These can also be difficult to find support for.
- BioEdit (Windows only)
- EMBOSS (OSX/Unix/Linux)
- MEGA4 (Windows/OSX/Linux)
- Gene Construction Kit (Windows/OSX)
- MacVector (OSX only)
- Peaks (Windows/OSX/Linux)
- Unipro UGENE (Windows/OSX/Linux)
Finchtv Download For Mac
Analysis Software geared toward the interests of Evolutionary Analysis, Population Genetics, Phylogenetics and the like:
A List of Phylogeny Programs by Joe Felsenstein If you can’t find what you’re looking for in this comprehensive and exhaustive list, it probably doesn’t exist.
JMATING a software for the analysis of sexual selection and sexual isolation effects from mating frequency data.
Mesquite is software for evolutionary biology, designed to help biologists analyze comparative data about organisms. Its emphasis is on phylogenetic analysis, but some of its modules concern population genetics, while others do non-phylogenetic multivariate analysis.
TREEFINDER is a software to compute phylogenetic trees from molecular sequences.
TreeRot is a very easy program to use for determining Bremer indices (decay indices) for phylogenetic trees. It is also capable of providing partitioned DI, and after your analysis is complete, the program can parse your output log and give you the DI at each node (so you don’t have to go through the log file yourself and do the arithmetic).
SGRunner SG Runner is a graphical user interface for Seq-Gen.
Cadence Cadence helps to conduct Bayesian relative rates tests.
PolypSizer A program for measuring things. Very useful when combined with a digitizing pad and drawing tube.
Gel Reader A program for estimating band sizes on electrophoretic gels.
For Windows:
Finchtv Download For Windows
Acquity 4.0 (ccg12 and ccg13) | MrBayes 3.0b4 |
Clustalx 1.83 | PAUP 4.0 |
DnaSP 4.0 | Phylip 3.65 |
GenePix Pro 6.0 (ccg12 and ccg13) | Phyml 2.4.4 |
Genespring 7.2 (ccg12 and ccg13) | Seq Scape 2.1.1 |
Mega 2 | Sequencing Analysis 5.1.1 |
Mega 3.1 | TreeView |
For Macs:
Clustalx 1.83.1 |
MacClade 4.06 |
MrBayes 3.1.2 |
PAUP 4.0 |
Phylip 3.65 |
Phyml 2.4.4 |
TreeView 1.6.6 |
Download Software To Watch Tv
CoMET (Continuous-character Model Evaluation and Testing) is a Mesquite module for calculating the likelihood of different Brownian motion-based models of continuous character change on phylogenies
Modeltest A tool to select the best-fit model of nucleotide substitution
MrAIC Perl script for selecting DNA substitution models using PHYML
MrModeltest C program for selecting DNA substitution models using PAUP Mailfit: Perl script that runs PAUP and MrModeltest2 (or Modeltest) and sends (optionally) results via e-mail
Geospiza Finchtv
Burntrees Perl script for manipulating MrBayes tree and parameter files. The script comes with an extra tool, catmb.pl, for concatenating files from separate MrBayes runs.
Vim Nexus syntax highlighting Nexus syntax highlighting files for the Vim editor. Recognizes many/most of the PAUP/MrBayes commands
Vim Nexus syntax highlighting Vim highlighting files for DNA sequence alignments
MrModelfit/Modelfit Perl script for running MrModeltest2/Modeltest
BootPHYML Perl script for performing non-parametric bootstrapping using PHYML