./biology/kallisto, Quantify abundances of transcripts from RNA-Seq data

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Branch: CURRENT, Version: 0.51.1, Package name: kallisto-0.51.1, Maintainer: bacon

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.


Required to run:
[devel/hdf5] [biology/htslib] [archivers/libaec]

Required to build:
[pkgtools/cwrappers]

Master sites:

Filesize: 5814.697 KB

Version history: (Expand)

CVS history: (Expand)


   2024-09-20 02:03:15 by Jason Bacon | Files touched by this commit (13) 
Log message:
biology/kallisto: Update to 0.51.1

Enhancements to ir-kallisto and pseudoalignments

Changes: https://github.com/pachterlab/kallisto/releases
Reported by: portscout
   2024-08-25 08:19:21 by Thomas Klausner | Files touched by this commit (575) 
Log message:
*: replace CMAKE_ARGS with CMAKE_CONFIGURE_ARGS
   2024-07-27 14:22:54 by Jason Bacon | Files touched by this commit (13) 
Log message:
biology/kallisto: Update to 0.51.0,1

Add support for long reads to kallisto bus and kallisto quant-tcc

Changes: https://github.com/pachterlab/kallisto/releases
Reported by: portscout
   2023-11-04 15:35:07 by Jason Bacon | Files touched by this commit (13) 
Log message:
biology/kallisto: Update to 0.50.1

Update kallisto index version to 13
A few other new features
Changes: https://github.com/pachterlab/kallisto/releases
   2022-12-28 16:27:18 by Jason Bacon | Files touched by this commit (20) 
Log message:
Change MAINTAINER= to OWNER= on mission-critical packages
   2022-02-27 02:57:27 by Jason Bacon | Files touched by this commit (6) 
Log message:
biology/kallisto: Update to 0.48.0

Long awaited bug fix release
Also unbundled htslib
Changes: https://github.com/pachterlab/kallisto/tags
   2021-10-26 12:03:45 by Nia Alarie | Files touched by this commit (73) 
Log message:
biology: Replace RMD160 checksums with BLAKE2s checksums

All checksums have been double-checked against existing RMD160 and
SHA512 hashes
   2021-10-07 15:19:44 by Nia Alarie | Files touched by this commit (73) 
Log message:
biology: Remove SHA1 hashes for distfiles