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Publication Year: 2026

321 to 330 of 463 Results

station_metadata.tab Mar 5, 2026 - Ten years of biogeochemical monitoring in the highly urbanized tropical Saigon-Dong Nai River estuary (2015-2025), Vietnam Tabular Data - 354 B - 3 Variables, 4 Observations - UNF:6:rd+suLd8zavZVSIsvgXulQ== Documentation - Spatial organization of sampling sites/stations - Site groupings: upstream (UP01-UP04), urban corridor (SG01-SG10), urban core (SG11-SG16), estuarine zone (SG17-SG23) - Fixed stations: HA, PC, BD, BK with characteristics
Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing Mar 4, 2026 - UMR MIVEGEC Berger, Audric; Lefebvre, Margaux; Dainat, Jacques; Jiolle, Davy; Conclois, Isabelle; Talignani, Loic; Mastriani, Emilio; Cornelie, Sylvie; Berthet, Nicolas; Paupy, Christophe, 2026, "Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing", https://doi.org/10.23708/LTXIKA, DataSuds, V1, UNF:6:v6tEqVWAwrDj6vZeLCHY6A== [fileUNF] This repository contains all the files needed to reproduce the results of the article "ViroSeek: a viral detection pipeline for second-generation sequencing", including the files needed to run the ViroSeek pipeline. ViroSeek is a simplified bioinformatics pipeline for the taxonom...
asv1.fasta Mar 4, 2026 - Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing Unknown - 1.8 KB - MD5: b52e6799cb42ab36b725fcc187a8b056 Données Fasta file required for ViroSeek_downstream_analysis.rmd
bash.nf Mar 4, 2026 - Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing Nextflow Script - 2.4 KB - MD5: 000890f8685ca18eac744416df40240e Code Modules for ViroSeek
bbmap.nf Mar 4, 2026 - Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing Nextflow Script - 693 B - MD5: e8fa0db631cf655672f252ca01ef8789 Code Modules for ViroSeek
bioawk.nf Mar 4, 2026 - Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing Nextflow Script - 655 B - MD5: 76915c2d9c8fc0265abb386b301e7c73 Code Modules for ViroSeek
CAMISIM_script.sh Mar 4, 2026 - Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing Shell Script - 4.3 KB - MD5: 7d1270ccb9f41129020b74093984e1ba Code Script to generate simulated paired-end metagenomic samples
compile2.py Mar 4, 2026 - Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing Python Source Code - 3.7 KB - MD5: 5b7a5150bc4f3414b6258c75ab30f952 Code Script for summarising for each taxonomic assignment
diamond.nf Mar 4, 2026 - Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing Nextflow Script - 609 B - MD5: 2f3f68a8fbdf184b809440c61df968ef Code Modules for ViroSeek
fastp.nf Mar 4, 2026 - Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing Nextflow Script - 1.0 KB - MD5: 954846bb0b0e5e86f08b763401828ef2 Code Modules for ViroSeek

station_metadata.tab

Mar 5, 2026 - Ten years of biogeochemical monitoring in the highly urbanized tropical Saigon-Dong Nai River estuary (2015-2025), Vietnam

Tabular Data - 354 B - 3 Variables, 4 Observations -

Documentation

- Spatial organization of sampling sites/stations - Site groupings: upstream (UP01-UP04), urban corridor (SG01-SG10), urban core (SG11-SG16), estuarine zone (SG17-SG23) - Fixed stations: HA, PC, BD, BK with characteristics

Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing

Mar 4, 2026 - UMR MIVEGEC

Berger, Audric; Lefebvre, Margaux; Dainat, Jacques; Jiolle, Davy; Conclois, Isabelle; Talignani, Loic; Mastriani, Emilio; Cornelie, Sylvie; Berthet, Nicolas; Paupy, Christophe, 2026, "Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing", https://doi.org/10.23708/LTXIKA, DataSuds, V1, UNF:6:v6tEqVWAwrDj6vZeLCHY6A== [fileUNF]

This repository contains all the files needed to reproduce the results of the article "ViroSeek: a viral detection pipeline for second-generation sequencing", including the files needed to run the ViroSeek pipeline. ViroSeek is a simplified bioinformatics pipeline for the taxonom...

asv1.fasta

Mar 4, 2026 - Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing

Unknown - 1.8 KB -

Données

Fasta file required for ViroSeek_downstream_analysis.rmd

bash.nf

Mar 4, 2026 - Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing

Nextflow Script - 2.4 KB -

Code

Modules for ViroSeek

bbmap.nf

Mar 4, 2026 - Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing

Nextflow Script - 693 B -

Code

Modules for ViroSeek

bioawk.nf

Mar 4, 2026 - Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing

Nextflow Script - 655 B -

Code

Modules for ViroSeek

CAMISIM_script.sh

Mar 4, 2026 - Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing

Shell Script - 4.3 KB -

Code

Script to generate simulated paired-end metagenomic samples

compile2.py

Mar 4, 2026 - Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing

Python Source Code - 3.7 KB -

Code

Script for summarising for each taxonomic assignment

diamond.nf

Mar 4, 2026 - Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing

Nextflow Script - 609 B -

Code

Modules for ViroSeek

fastp.nf

Mar 4, 2026 - Replication Data and Scripts : ViroSeek a viral detection pipeline for second-generation sequencing

Nextflow Script - 1.0 KB -

Code

Modules for ViroSeek

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