Port details on branch 2022Q2 |
- kallisto Quantify abundances of transcripts from RNA-Seq data
- 0.50.1,1 biology =0 0.50.1,1Version of this port present on the latest quarterly branch.
- Maintainer: jwb@FreeBSD.org
- Port Added: 2017-12-02 20:44:35
- Last Update: 2023-11-04 13:15:25
- Commit Hash: 8a2deae
- License: BSD2CLAUSE
- WWW:
- https://pachterlab.github.io/kallisto/about.html
- Description:
- Kallisto is a program for quantifying abundances of transcripts from RNA-Seq
data, or more generally of target sequences using high-throughput sequencing
reads. It is based on the novel idea of pseudoalignment for rapidly determining
the compatibility of reads with targets, without the need for alignment.
- ¦ ¦ ¦ ¦
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - Dependency lines:
-
- kallisto>0:biology/kallisto
- To install the port:
- cd /usr/ports/biology/kallisto/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/kallisto
- pkg install kallisto
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.- PKGNAME: kallisto
- Flavors: there is no flavor information for this port.
- ONLY_FOR_ARCHS: aarch64 amd64 powerpc64 powerpc64le riscv64
- distinfo:
- TIMESTAMP = 1698923323
SHA256 (pachterlab-kallisto-v0.50.1_GH0.tar.gz) = 030752bab3b0e33cd3f23f6d8feddd74194e5513532ffbf23519e84db2a86d34
SIZE (pachterlab-kallisto-v0.50.1_GH0.tar.gz) = 5947303
Packages (timestamps in pop-ups are UTC):
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Build dependencies:
-
- cmake : devel/cmake-core
- gmake>=4.3 : devel/gmake
- Library dependencies:
-
- libhdf5.so : science/hdf5
- libsz.so : science/libaec
- libhts.so : biology/htslib
- This port is required by:
- for Run
-
- biology/biostar-tools
- biology/rna-seq
Configuration Options:
- ===> The following configuration options are available for kallisto-0.50.1,1:
EXAMPLES=on: Build and/or install examples
===> Use 'make config' to modify these settings
- Options name:
- biology_kallisto
- USES:
- cmake:noninja compiler:c++11-lang gmake localbase:ldflags
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
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