There is a newer version of the record available.

Published February 5, 2026 | Version v1.6.0
Software Open

AliNe: A Flexible and Efficient Nextflow Pipeline for Read Alignment

Authors/Creators

Description

What's Changed

  • Cram by @Juke34 in https://github.com/Juke34/AliNe/pull/41

  • add Dragmap by @Juke34 in https://github.com/Juke34/AliNe/pull/42

  • Add cram output Fix https://github.com/Juke34/AliNe/issues/40

  • Add Index to bam/cram output

  • fix missing output when running subread

  • Kallisto output is now sorted

  • Update to latest samtools version

  • nglmr => paired output was missing

  • fix displayed tag into bwamem2

  • add dragmap aligner fix https://github.com/Juke34/AliNe/issues/39

  • add filter_unmapped to reduce output size (remove non mapped reads)

  • make automatically the comparison table (then one described in the readme before) via R script in /bin. Statistics have to be activated (samtools, fastqc) ...

Full Changelog: https://github.com/Juke34/AliNe/compare/v1.5.2...v1.6.0

Notes

If you use this software, please cite our article in the Journal of Open Source Software.

Files

Juke34/AliNe-v1.6.0.zip

Files (4.3 MB)

Name Size Download all
md5:c9f6ae829cfbb65a794293baeb9147fd
4.3 MB Preview Download

Additional details

Related works

Is supplement to
Software: https://github.com/Juke34/AliNe/tree/v1.6.0 (URL)

Software

Repository URL
https://github.com/Juke34/AliNe