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AliNe: A Flexible and Efficient Nextflow Pipeline for Read Alignment

integration_instructionsResearch softwarekeyboard_double_arrow_right Software 01 Mar 2025Publisher:Zenodo
Authors: Dainat, Jacques;
Code repository: https://github.com/Juke34/AliNe/tree/v1.5.1

doi: 10.5281/zenodo.15691447 , 10.5281/zenodo.18713957 , 10.5281/zenodo.18704494 , 10.5281/zenodo.15056245 , 10.5281/zenodo.18704399 , 10.5281/zenodo.18497142 , 10.5281/zenodo.18712148 , 10.5281/zenodo.18680949 , 10.5281/zenodo.15688711 , 10.5281/zenodo.15745172 , 10.5281/zenodo.18769760 , 10.5281/zenodo.18681992 , 10.5281/zenodo.18701304 , 10.5281/zenodo.15663775 , 10.5281/zenodo.18769234 , 10.5281/zenodo.18701047 , 10.5281/zenodo.15689032 , 10.5281/zenodo.14953389 , 10.5281/zenodo.18686026 , 10.5281/zenodo.14953388 , 10.5281/zenodo.18768884 , 10.5281/zenodo.18695350 , 10.5281/zenodo.15050965 , 10.5281/zenodo.18704528 , 10.5281/zenodo.15426158 , 10.5281/zenodo.15689082 , 10.5281/zenodo.15744895

AliNe: A Flexible and Efficient Nextflow Pipeline for Read Alignment

Abstract

Update strandedness to handle null for daisy chaining case Update read_type to handle null for daisy chaining case Filter bam file among csv input (useful for daisy chaining with RAIN)

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

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
0
Average
Average
Average