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COMBINE-lab /salmon

🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment

c-plus-plus bioinformatics rna-seq gene-expression rnaseq scrna-seq quantification transcriptome single-cell quasi-mapping salmon sailfish 10x single-cell-rna-seq selective-alignment rna-seq-quantification

UpdatedMay 29, 2024
C++

hyunhwan-jeong /SalmonTE

SalmonTE is an ultra-Fast and Scalable Quantification Pipeline of Transpose Element (TE) Abundances

pipeline salmon transposable-elements ngs-analysis

UpdatedJan 26, 2023
Jupyter Notebook

mastodon /ostatus2

A Ruby toolset for interacting with the OStatus suite of protocols

UpdatedJan 12, 2020
Ruby

Novartis /pisces

PISCES is a pipeline for rapid transcript quantitation, genetic fingerprinting, and quality control assessment of RNAseq libraries using Salmon.

bioinformatics bioinformatics-pipeline rnaseq transcriptomics salmon rnaseq-pipeline

UpdatedJun 17, 2025
Python

thelovelab /fishpond

Differential expression and allelic analysis, nonparametric statistics

statistics genomics gene-expression bioconductor rnaseq transcriptomics salmon scrnaseq

UpdatedJan 3, 2025
R

yyoshiaki /ikra

RNAseq pipeline centered on Salmon

transcript ion illumina salmon gencode

UpdatedNov 21, 2024
Shell

Juke34 /AliNe

Nextflow Alignment Pipeline - from fastq.gz to sorted bam with ease

nextflow star hisat2 salmon kallisto bwa last bowtie bowtie2 minimap2 nucmer ngmlr bbmap subread graphmap2 novoalign bwa-sw sublong bmw-mem2 starlong

UpdatedJun 26, 2025
Nextflow

OStatus /spec

OStatus Specification

spec webfinger salmon ostatus microblogging federated-social-web

UpdatedApr 11, 2015
HTML

tucca-cellag /tucca-rna-seq

TUCCA's RNA-Seq Workflow for Read Quantification, Differential Expression, and Pathway Enrichment Analysis

bioinformatics quality-control rna-seq snakemake conda singularity deseq2 ideal reproducibility high-throughput transcriptomics salmon differential-expression snakemake-workflow pathway-enrichment-analysis renv clusterprofiler apptainer genetonic pcaexplorer

UpdatedOct 2, 2025
R

pfefferle /wordpress-salmon

A salmon plugin for WordPress

plugin wordpress wordpress-plugin salmon ostatus salmon-protocol

UpdatedApr 23, 2020
PHP

iamcal /homespring.js

A JavaScript interpreter for Homespring

interpreter salmon homespring

UpdatedSep 30, 2025
JavaScript

SoniaRuiz /coexp-website

CoExp website is a web-based tool developed in .NET Core Framework, for querying 109 independent gene co-expression networks from the family of CoExp R packages.

jquery html5 csharp apache mvc-framework mvc-architecture genetic-algorithms salmon kestrel html-css-javascript co-expression netcore3 coexp-webpage

UpdatedJul 18, 2025
JavaScript

nwfsc-cb /rCAX

rCAX R package: an R client to access the REST API for the StreamNet Coordinated Assessments tables

rest-api noaa r-package salmon

UpdatedJan 14, 2025
R

sk7-dotcom /Evaluating_RNAseq_aligners

Evaluating HISAT2, Salmon and Kallisto alignment using Checkpoint Blockade treated CT26 Experimental Data

rna-seq hisat2 salmon kallisto

UpdatedMay 4, 2021
HTML

dapperstats /salvage

Code for smooth interactions with the salvage database

continuous-deployment california delta salmon salvage smelt

UpdatedNov 6, 2025
HTML

mku11 /Salmon-Vault

Secure all your personal files in Salmon Vault with AES-256 encryption for your Android, Windows, Linux, MacOS devices. Powered by Salmon AES CTR library.

javascript java xamarin csharp vault file aes-256 salmon maui

UpdatedOct 4, 2025
C#

asendia /salmonfit

Frontend code of salmonfit.com

pwa amp svelte netlify salmon

UpdatedDec 16, 2024
Svelte

ORE-DiaPFC /Abondance

Mise à jour et standardisation des séries chronologiques d'abondance du saumon atlantique sur les cours d'eau de l'ORE DiaPFC

modeling bayesian-inference salmon abundance-estimation

UpdatedJul 25, 2025
HTML

InfiniteTeam /SalmonBot

연어봇 - SalmonBot

python discord discord-bot python3 discord-py salmon discord-py-rewrite

UpdatedAug 2, 2020
Python

yejg2017 /Sequence-Mapping-Bio

This is a code tutorial for rna or dna sequence mapping by myself-RyanYip

multiqc star salmon htseq featurecounts bowtie2 fastqc

UpdatedDec 10, 2018
Shell

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