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GeneLab_Data_Processing Public
Forked from nasa/GeneLab_Data_ProcessingNextflow pipeline updates
Jupyter Notebook UpdatedOct 10, 2025 -
rnaseq-nf Public
Forked from nextflow-io/rnaseq-nfA proof of concept of RNAseq pipeline
Nextflow Apache License 2.0 UpdatedMar 7, 2025 -
metagenomics_nf Public
Shotgun metagenomics assembly-based gene prediction with Nextflow
Nextflow MIT License UpdatedFeb 8, 2024 -
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snakemake-workflow-qiime2 Public
Snakemake pipeline for 16S, 18S and ITS metagenomics using qiime2
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python-cheatsheet Public
Forked from gto76/python-cheatsheetComprehensive Python Cheatsheet
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Snakemake pipeline to perform reference based transcriptomics
Python MIT License UpdatedAug 15, 2023 -
snakemake-usearch Public
A snakemake pipeline for amplicon (16S, 18S, ITS) sequence analysis using Usearch.
Python GNU General Public License v3.0 UpdatedJul 25, 2023 -
machine-learning-book Public
Forked from rasbt/machine-learning-bookCode Repository for Machine Learning with PyTorch and Scikit-Learn
Jupyter Notebook MIT License UpdatedJul 16, 2023 -
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sanbomics_scripts Public
Forked from mousepixels/sanbomics_scriptsscripts and notebooks from sanbomics
Jupyter Notebook UpdatedJul 11, 2023 -
microbiome-dashbaoard Public
A simple flexdashboard to browse microbiome datasets. Static html report and a runtime shiny.
HTML MIT License UpdatedJun 21, 2023 -
qiime1-scripts Public
Bash scripts for running QIIME 1.9 and a Snakemake workflow to automate it using singularity container images.
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snakemake-16S-assembly Public
A snakemake pipeline to assemble and annotate near full length 16S rRNA sequences.
Python MIT License UpdatedJun 20, 2023 -
snakemake-genome-assembly Public
A snakemake pipeline to assemble a microbial draft genome assembly, scaffold and annotate it.
UpdatedJun 16, 2023 -
code_snippets Public
Forked from CoreyMSchafer/code_snippetsJupyter Notebook MIT License UpdatedJun 8, 2023 -
chenlab-training Public
Forked from swainechen/chenlab-trainingCSS MIT License UpdatedMay 26, 2023 -
og-aws Public
Forked from open-guides/og-aws📙 Amazon Web Services — a practical guide
Shell Creative Commons Attribution 4.0 International UpdatedMay 8, 2023 -
R-files-from-YouTube Public
Forked from bkrai/R-files-from-YouTubeR and Data Files from my YouTube Channel
UpdatedOct 17, 2022 -
docker-builds Public
Forked from StaPH-B/docker-builds📦 🐳 Dockerfiles and documentation on tools for public health bioinformatics
Dockerfile GNU General Public License v3.0 UpdatedAug 26, 2022 -
PyFeat Public
Forked from mrzResearchArena/PyFeatA Python-based Effective Feature Generation Tool from DNA, RNA, and Protein Sequences
Python GNU General Public License v3.0 UpdatedAug 14, 2022 -
containers Public
Forked from BioContainers/containersBioinformatics containers
Dockerfile Apache License 2.0 UpdatedAug 11, 2022 -
snakemake-Qaulity-check Public
A snakemake pipeline to trim primers and adaptors from illumina reads and also provides useful statistics about the reads before and after trimming.
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snakemake-Demultiplex-fastq Public
Given a set of index, fastq and sample to barcode file, generate a directory structure with each sample's forward and reverse reads contained in individual sample directories.
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Roll-and-clear Public
A simple program to apply two rolling functions to a data frame, clear intermediate cells and optionally write the modified data frame to Excel. The program is implemented both procedurally and usi…
HTML MIT License UpdatedJun 1, 2022 -
vcf2pop Public
Forked from sansubs/vcf2popgenerate phylogenetic tree from a vcf file
HTML MIT License UpdatedApr 20, 2022 -
awesome-pipeline Public
Forked from pditommaso/awesome-pipelineA curated list of awesome pipeline toolkits inspired by Awesome Sysadmin
UpdatedApr 11, 2022 -
coding-interview-university Public
Forked from jwasham/coding-interview-universityA complete computer science study plan to become a software engineer.
Creative Commons Attribution Share Alike 4.0 International UpdatedMar 17, 2022 -
A snakemake workflow for performing metatranscriptomics
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🔗 Source code of my homepage build with {blogdown}, HUGO and Netlify
HTML UpdatedNov 15, 2021
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