Pinned Repositories
2020-07-17-miskatonic
515F-Y_926R_database_construction
A repository containing code for constructing qiime2 databases for the "Parada primers" (515F-Y / 926R). See linked OSF repo for the actual artifacts for specific qiime2 versions.
awesome-becl-resources
Awesome resources for biological engineering students compiled by the MIT Communication Lab
B-MIS-normalization
Best-matched internal standard normalization for metabolomics
BioIn
bioinformatics-100-days
Learn and practice the bioinformatics skills in 100 Days.
Bioinformatics-Data-Skills
Supplementary files for my book, "Bioinformatics Data Skills"
BlueCarbon
cdom
The cdom package implements various functions used to model and calculate metrics from absorption spectra of chromophotic dissolved organic matter (CDOM).
EasyMetagenome
Easy Metagenome Pipeline 2019 (1.0)
Vileu's Repositories
Vileu/EasyMetagenome
Easy Metagenome Pipeline 2019 (1.0)
Vileu/2020-07-17-miskatonic
Vileu/515F-Y_926R_database_construction
A repository containing code for constructing qiime2 databases for the "Parada primers" (515F-Y / 926R). See linked OSF repo for the actual artifacts for specific qiime2 versions.
Vileu/Chinese-STD-GB-T-7714-related-csl
GB/T 7714相关的csl以及Zotero使用技巧及教程。
Vileu/CoreMS
CoreMS is a comprehensive mass spectrometry software framework
Vileu/cytoscape
Cytoscape: an open source platform for network analysis and visualization
Vileu/Day3-EMSL-SummerSchool-2022
KNOW YOUR ORGANIC MATTER
Vileu/eASV-pipeline-for-515Y-926R
This is a collection of scripts for analyzing mixed 16S/18S amplicon sequences using tools such as qiime2, DADA2, deblur, and bbtools
Vileu/EnviroMS
EnviroMS is a software for natural organic matter data processing and annotation
Vileu/ftmsRanalysis
Vileu/GeminiProChat
Minimal web UI for GeminiPro.
Vileu/ggOceanMaps
Plot oceanographic research data on maps using ggplot2
Vileu/Git_learn
Git is a good start.
Vileu/gkpbt-css-circle
css-circle
Vileu/ICRTutorial
This contains all the files and scripts necessary to participate in the FTICR-MS data analysis demonstration at the SBR SFA Community Workshop 2019, the AGU CZO/Watershed Workshop, and the EMSL Summer School.
Vileu/illumina-utils
A library and collection of scripts to work with Illumina paired-end data (for CASAVA 1.7+ pipeline).
Vileu/metagenomics_summer_school
Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in December
Vileu/MetaSeq-Toolkit
This pipeline is intended to be a convenient way to work though large sets of metagenomic or metatranscriptiomic datasets while also retaining high analytical flexibility due to retained intermediate results that might be useful outside of the intended purpose.
Vileu/MFAssignR
The MFAssignR package was designed for multi-element molecular formula (MF) assignment of ultrahigh resolution mass spectrometry measurements. A number of tools for internal mass recalibration, MF assignment, signal-to-noise evaluation, and unambiguous formula selections are provided.
Vileu/microbiome_helper
A repository of bioinformatic scripts, SOPs, and tutorials for analyzing microbiome data.
Vileu/MicrobiomeAnalystR
A companion R package for the MicrobiomeAnalyst web server
Vileu/MicrobiomeBestPracticeReview
Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing
Vileu/MicrobiomeStatPlot
Interpretation and visualization of microbiome charts
Vileu/MP2019
Vileu/pb-16S-nf
Nextflow pipeline to analyze PacBio HiFi full-length 16S data
Vileu/qiime2
Official repository for the QIIME 2 framework.
Vileu/rstudio-cheatsheets
RStudio Cheat Sheets
Vileu/seabird
Python parser for Sea-Bird CTD outputs, usually .cnv files.
Vileu/sheng-xin-xiao-bai-yu
历史文档备份
Vileu/ustcthesis
LaTeX template for USTC thesis