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An interactive viewer for large phylogenetic trees and networks: All [22] DensiTree A viewer capable of viewing multiple overlaid trees. All [23] FigTree: Simple Java tree viewer able to read newick and nexus tree files. Can be used to color branches and produce vector artwork. All [24] JEvTrace
dir-tree, back and forth navigation, bookmarks Yes Yes user-defined, name, date, file size, image size, type Geeqie: Yes Yes Yes fit, 1:1, in/out Yes previous, next Yes 24x24 - 256x256 Yes as png-files centrally or in sub-dir list, dir-tree, collection Yes Yes collections, keywords, directory gThumb: Yes Yes random, forward, reverse Yes
Tree calculation tool calculates phylogenetic tree using BioJava API and lets user draw trees using Archaeopteryx: Software is package of 7 interactive visual tools for multiple sequence alignments. Major focus is manipulating large alignments. Includes MSApad, MSA comparator, MSA reconstruction tool, FASTA generator and MSA ID matrix calculator
Tree: The full input Newick Format for a single tree Subtree: an internal node (and its descendants) or a leaf node Leaf: a node with no descendants Internal: a node and its one or more descendants BranchSet: a set of one or more Branches Branch: a tree edge and its descendant subtree.
Tree views are used in situations where hierarchical data needs to be displayed and navigated in a graphical interface. For example, they have been used in: file managers to display the hierarchical structure of directories and files residing in a computer file system so that users can navigate the directory tree and open, close and manage ...
Gizmo's Freeware directory featured WinDirStat in a January 2010 list of best free disk analysis software with a 4 of 5 stars review, noting: "The open source program WinDirStat is [an] outstanding program. It uses three ways to display the disk usage: a directory list, a file extension list and a rectangular treemap.
Archaeopteryx is an interactive computer software program, written in Java, for viewing, editing, and analyzing phylogenetic trees.This type of program can be used for a variety of analyses of molecular data sets, but is particularly designed for phylogenomics.
It is only really useful when used with + and usually in combination with the -R flag for giving Group or Others access to a big directory tree without setting execute permission on normal files (such as text files), which would normally happen if you just used chmod -R a+rx ., whereas with X you can do chmod -R a+rX . instead