Pinned Repositories
microbiome_helper
A repository of bioinformatic scripts, SOPs, and tutorials for analyzing microbiome data.
PICRUSt_database_update
This repo contains updated precalculated files to be used with PICRUSt for prediction of metagenomes from 16S rRNA amplicon sequencing data.
assembly-stats
Assembly statistic visualisation
assembly-stats-1
Get assembly statistics from FASTA and FASTQ files
BBMap
(Not Offical) BBMap short read aligner, and other bioinformatic tools.
centrifuge
Classifier for metagenomic sequences
COG
Scripts and steps for making a consolidated COG database file for tools like DIAMOND.
Complete-Python-3-Bootcamp
Course Files for Complete Python 3 Bootcamp Course on Udemy
CoverM
Read coverage calculator for metagenomics
Data-Science-For-Life-Science
CRT outreach program to assist life scientists in learning basic data science skills.
arghya1611's Repositories
arghya1611/environmental_metagenomics
A quick workflow to get researchers started with the bioinformatic pipeline used in the Environmental Metagenomics program.
arghya1611/PRISMA2020
arghya1611/mangrove-metagenomics
arghya1611/SUPER-FOCUS
A tool for agile functional analysis of shotgun metagenomic data
arghya1611/Data-Science-For-Life-Science
CRT outreach program to assist life scientists in learning basic data science skills.
arghya1611/METABOLIC
A scalable high-throughput metabolic and biogeochemical functional trait profiler
arghya1611/ncbi-genome-download
Scripts to download genomes from the NCBI FTP servers
arghya1611/VizBin
Repository of our application for human-augmented binning
arghya1611/itolapi
Python API for the Interactive Tree of Life (iTOL)
arghya1611/metabolisHMM
Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs
arghya1611/CoverM
Read coverage calculator for metagenomics
arghya1611/pgap
NCBI Prokaryotic Genome Annotation Pipeline
arghya1611/kegg_http_tools
Query KEGG for pathways from KEGG Orthologs (KOs).
arghya1611/parkinson_int_meta_pipe
meta transcript/genomics pipeline for parkinson lab
arghya1611/MAGpy
Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)
arghya1611/centrifuge
Classifier for metagenomic sequences
arghya1611/Metatranscriptome-Workshop
Metatranscriptomics Tutorial
arghya1611/microbiome_helper
A repository of bioinformatic scripts, SOPs, and tutorials for analyzing microbiome data.
arghya1611/assembly-stats
Assembly statistic visualisation
arghya1611/assembly-stats-1
Get assembly statistics from FASTA and FASTQ files
arghya1611/COG
Scripts and steps for making a consolidated COG database file for tools like DIAMOND.
arghya1611/genome_annotation
The genome annotation service provides automated gene annotation based on the RAST system. This deploys both client and service components.
arghya1611/metatranscriptomics-scripts
This repo contains modified python scripts from https://github.com/ParkinsonLab/Metatranscriptome-Workshop
arghya1611/omixer-rpm
A Reference Pathways Mapper for turning metagenomic functional profiles into pathway/module profiles.
arghya1611/PhylogenomicsWorkflow
A workflow to generate a phylogentic tree with your Genomes
arghya1611/rna-seq-
arghya1611/picrust2
Code, unit tests, and tutorials for running PICRUSt2
arghya1611/seqtk
Toolkit for processing sequences in FASTA/Q formats
arghya1611/Complete-Python-3-Bootcamp
Course Files for Complete Python 3 Bootcamp Course on Udemy
arghya1611/BBMap
(Not Offical) BBMap short read aligner, and other bioinformatic tools.