PISCES is a pipeline for rapid transcript quantitation, genetic fingerprinting, and quality control assessment of RNAseq libraries using Salmon.
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Jun 17, 2025 - Python
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salmon
Here are 11 public repositories matching this topic...
RNA-seq Analysis Pipeline Testing and Optimization Resource - Intelligent pipeline selection and comprehensive benchmarking.
python benchmarking machine-learning rna-seq genomics deseq2 transcriptomics salmon kallisto featurecounts edger rna-seq-pipeline bulk-rna-seq differential-expression-analysis streamlit limma-voom pipeline-benchmarking pipeline-comparison
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Dec 17, 2025 - Python
연어봇 - SalmonBot
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Aug 2, 2020 - Python
Transform, query, and merge tabular files with the expressionable command-line tool. This tool is used primarily for gene-expression data.
tsv filter tabular-data stata merge gene-expression msgpack hdf5 parquet pickle transcription arff salmon kallisto transforming-files gct
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Jul 24, 2019 - Python
Perform differential analysis from FastQ files with Salmon, tximport, and DESeq2
reproducible-research bioinformatics-pipeline deseq2 salmon differential-expression snakemake-workflows tximport
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Aug 18, 2021 - Python
Snakemake workflow for Salmon quantification and FastQC quality controls
bioinformatics-pipeline multiqc salmon snakemake-workflows reproducible-workflows fastqc rnaseq-pipeline
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Mar 20, 2021 - Python
Simple Snakemake RNA-Seq pipeline
python rna-seq snakemake r pandas python3 bioconductor salmon miniconda dge miniconda3 dge-analysis salmon-deseq2 rnaseq-pipeline snakemake-pipeline rnaseq-analysis snakemake-rna-seq
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Mar 21, 2023 - Python
Count your fastq-formatted rna-seq reads with Salmon
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Apr 10, 2020 - Python
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