salmon

There are 79 repositories under salmon topic.

  • COMBINE-lab/salmon

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

    Language:C++78038839164

  • hyunhwan-jeong/SalmonTE

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

    Language:Jupyter Notebook8188023

  • mastodon/ostatus2

    A Ruby toolset for interacting with the OStatus suite of protocols

    Language:Ruby31539

  • Novartis/pisces

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

    Language:Python292223

  • thelovelab/fishpond

    Differential expression and allelic analysis, nonparametric statistics

    Language:R283179

  • yyoshiaki/ikra

    RNAseq pipeline centered on Salmon

    Language:Shell27124020

  • OStatus/spec

    OStatus Specification

    Language:HTML19410

  • pfefferle/wordpress-salmon

    A salmon plugin for WordPress

    Language:PHP9325

  • iamcal/homespring.js

    A JavaScript interpreter for Homespring

    Language:JavaScript630

  • nwfsc-cb/rCAX

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

    Language:R52301

  • 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.

    Language:JavaScript5201

  • dapperstats/salvage

    Code for smooth interactions with the salvage database

    Language:HTML4490

  • asendia/salmonfit

    Frontend code of salmonfit.com

    Language:Svelte3200

  • InfiniteTeam/SalmonBot

    연어봇 - SalmonBot

    Language:Python3105

  • 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

    Language:HTML3300

  • bissessk/RNA-seq-Analysis-of-Control-and-NRDE2-depleted-Breast-Cancer-Cells

    Performed a differential gene expression analysis with RNA-seq that compares the expression in human control breast cancer cell lines with lines treated by silencing the NRDE2 gene. A Salmon + tximport + DESeq2 workflow was conducted to pursue this.

    Language:Shell210
  • SMG5-SMG7

    boehmv/SMG5-SMG7

    Code and scripts for the RNA-seq analysis of project: SMG5-SMG7 authorize nonsense-mediated mRNA decay by enabling SMG6 endonucleolytic activity

    Language:R2300

  • boehmv/UPF3

    Code and scripts for the RNA-seq analysis of project: Deciphering the cellular roles and dissecting functional regions of UPF3A and UPF3B in human NMD

    Language:R2100

  • mdscheuerell/AukeCoho

    Development site for an integrated population model for Auke Creek coho salmon

    Language:HTML2560

  • 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.

    Language:C#2270

  • nwfsc-math-bio/VRData

    Spawner and fraction wild data for the NWFSC Status Reviews.

    Language:R21321

  • sk7-dotcom/Evaluating_RNAseq_aligners

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

    Language:HTML2100

  • srp33/ExpressionAble

    Transform, query, and merge tabular files with the expressionable Python module. This tool is used primarily for gene-expression data.

    Language:HTML2405

  • srp33/ExpressionAble-CLI

    Transform, query, and merge tabular files with the expressionable command-line tool. This tool is used primarily for gene-expression data.

    Language:Python2300

  • tdayris-perso/rna-dge-salmon-deseq2

    Perform differential analysis from FastQ files with Salmon, tximport, and DESeq2

    Language:Python2113

  • yejg2017/Sequence-Mapping-Bio

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

    Language:Shell2000

  • danStich/dia

    An R package for hosting data & code, and for running the Dam Impact Analysis (DIA) developed by [Nieland et al. (2015)](https://academic.oup.com/icesjms/article/72/8/2423/2458708)

    Language:CSS1102

  • fionacarson/salmon_density_dashboard

    Density of juvenile salmon in Caithness rivers - R-shiny dashboard

    Language:R1100

  • gusg21/distributed-project

    an unfinished game I worked on for my Distributed Computing class in high school

    Language:C#140

  • int-salmon-data-lab/statusAndTrends

    Datasets and related knowledge from the IYS Salmon Status and Trends workshops

    Language:R1411

  • nwfsc-math-bio/NWCTrends

    This is an R package that runs the standardized trends metrics used in the 5-year Viability Reports for listed PNW salmonids.

    Language:R13150

  • Pinky-cloud224/snakemake_workflow_rna_seq_data_analysis

    Language:Jupyter Notebook1200

  • salish-sea/orca-salmon

    A dashboard visualizing Chinook salmon returns to the Fraser and Columbia Rivers and Southern Resident killer whales occurrence

    Language:Python1020

  • salmon-forecasting/workshop-2024

    Information for a workshop on salmon forecasting sponsored by the USGS Cooperative Units Program. Participants include scientists from state and federal agencies in California, Oregon, Washington, and Idaho.

    Language:HTML1

  • salmoncoast/Sea-lice-database

    Data from a longterm sea lice monitoring in the Broughton Archipelago, British Columbia, Canada by Alexandra Morton (Raincoast Research) and the Salmon Coast Field Station (salmoncoast.org)

    Language:R1201

  • tdayris-perso/rna-count-salmon

    Snakemake workflow for Salmon quantification and FastQC quality controls

    Language:Python1280