| Port details |
- fasda Fast and simple differential analysis
- 0.1.5_1 biology
 =2      0.1.5_1Version of this port present on the latest quarterly branch. - Maintainer: jwb@FreeBSD.org
- Port Added: 2022-12-14 00:00:46
- Last Update: 2024-03-02 19:03:05
- Commit Hash: 3901323
- People watching this port, also watch:: jdictionary, py311-Automat, py311-python-gdsii, py39-PyOpenGL, p5-Sane
- License: BSD2CLAUSE
- WWW:
- https://github.com/auerlab/fasda
- Description:
- FASDA aims to provide a fast and simple differential analysis tool
that just works and does not require any knowledge beyond basic Unix
command-line skills. The code is written entirely in C to maximize
efficiency and portability, and to provide a simple command-line user
interface.
  ¦  ¦  ¦  ¦ 
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - Dependency lines:
-
- To install the port:
- cd /usr/ports/biology/fasda/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/fasda
- pkg install fasda
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.- PKGNAME: fasda
- Flavors: there is no flavor information for this port.
- distinfo:
- TIMESTAMP = 1698151465
SHA256 (auerlab-fasda-0.1.5_GH0.tar.gz) = 38ff2231259c67e814937f1032808b99fca24763d80dc7a6ad40cc65a518c085
SIZE (auerlab-fasda-0.1.5_GH0.tar.gz) = 77908
Packages (timestamps in pop-ups are UTC):
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Runtime dependencies:
-
- stringtie>0 : biology/stringtie
- Library dependencies:
-
- libxtend.so : devel/libxtend
- libbiolibc.so : biology/biolibc
- This port is required by:
- for Run
-
- biology/atac-seq
- biology/chip-seq
- biology/rna-seq
Configuration Options:- No options to configure
- Options name:
- biology_fasda
- USES:
- localbase
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
|
Number of commits found: 5
| Commit History - (may be incomplete: for full details, see links to repositories near top of page) |
| Commit | Credits | Log message |
|---|
0.1.5_1
02 Mar 2024 19:03:05
 |
Nuno Teixeira (eduardo) |
biology/fasda: Move man pages to share/man
Approved by: portmgr (blanket) |
0.1.5
28 Oct 2023 11:32:20
|
Jason W. Bacon (jwb) |
biology/fasda: Update to 0.1.5
abundance:
Update stringtie command to also produce gene-level abundances
Output 0 for effective length for now to clearly indicate that it's invalid
normalize: Add --debug option
Updates for latest libxtend API
Test -> Yeast-test
Add Mouse-test suite with multiple mouse data options
Streamline test scripts
Changes: https://github.com/auerlab/fasda/releases |
0.1.4
11 Aug 2023 20:39:06
|
Jason W. Bacon (jwb) |
biology/fasda: Update to 0.1.4
Add --debug
Replace --map-gene with --feature-type for more flexibility
Use extended REs for gff3 feature selection (default =
RNA$|transcript$|gene_segment$, same as transcript in GTF)
Add --output-dir
Support |-separated ID aliases (report last alias)
Support outsourcing abundance calculation (default = stringtie)
Several bug fixes and minor enhancements
Changes: https://github.com/auerlab/fasda/releases |
0.1.3
10 Jun 2023 11:57:56
|
Jason W. Bacon (jwb) |
biology/fasda: Update to 0.1.3
Improvements to test scripts and results analysis scripts
Updates for libxtend API changes
Code clean up
Changes: outpaddling/libxtend/releases |
0.1.2
12 Dec 2022 17:17:22
|
Jason W. Bacon (jwb) |
biology/fasda: Fast and simple differential analysis
FASDA aims to provide a fast and simple differential analysis tool
that just works and does not require any knowledge beyond basic Unix
command-line skills. The code is written entirely in C to maximize
efficiency and portability, and to provide a simple command-line user
interface. |
Number of commits found: 5
|
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