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Hi there 👋 Vikash K Singh

Hi, I am Vikash K Singh, Postdoc Associate at University of Minnesota, USA. I am interested in Metagenomics, Viromics, automation and machine learning.

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vikash84's Projects

seq_typing icon seq_typing

Determine which reference sequence is more likely to be present in a given sample

seroblast icon seroblast

script for identification of S. suis serotype from draft genome

shaman icon shaman

SHAMAN is a SHiny application for Metagenomic ANalysis including a bioinformatic workflow, the statistical analysis and multiple visualization.

shotmap icon shotmap

A Shotgun Metagenome Annotation Pipeline

singularities icon singularities

Scripts and notes for singularity containers used for bioinformatics analyses

singularity-tutorial icon singularity-tutorial

Materials for 3 hour hands-on workshop entitled "Creating and running software containers with Singularity"

skani icon skani

Fast, robust ANI and aligned fraction for metagenomic genomes and contigs

smallgenomeutilities icon smallgenomeutilities

smallgenomeutilities is a collection of Python scripts to convert alignments between different reference genomes.

smart-seq-total icon smart-seq-total

R notebooks containing the code used to analyze Smart-seq-total data

smot icon smot

Simple Manipulation Of Trees

snakenullarbor icon snakenullarbor

Produce the nullarbor report for clinical microbiologists using snakemake

snakepipes icon snakepipes

A toolkit based on snakemake and python for analysis of NGS data

snikt icon snikt

Identify and remove adapter/systemic contamination in WGS and metagenomic sequencing DNA/RNA data.

snp-sites icon snp-sites

Finds SNP sites from a multi-FASTA alignment file

snpeffwrapper icon snpeffwrapper

Takes a VCF and applies annotations from a GFF using SnpEff

sns icon sns

sequencing data analysis pipelines

spa-type icon spa-type

Perform spa typing on Staphylococcus aureus assemblies or reads.

spandx icon spandx

SPANDx - Comparative genomics for next-generation haploid sequence data

spar icon spar

SPAR is a collection of python scripts useful for the analysis of swine pathogen genomes.

ssuischara icon ssuischara

An integrated analysis pipeline for Streptococcus suis

ssuissero icon ssuissero

Rapid Streptococcus suis Serotyping on Nanopore Sequencing Data

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