Rhinolophus-HLrhiFer5, Phyllostomus-HLphyDis3, Myotis-HLmyoMyo6, Molossus-HLmolMol2, Pipistrellus-HLpipKuh2, Rousettus-HLrouAeg4: SERFCHART
Covid19 Sequenced Genome, Datasets: SERF Illumina BaseSpace Users

De Novo Sequence Analysis

SERF

De novo analysis of DNA and RNA Genomic Data from Next Generation Sequencers to discover biomarkers.

SERF MASK

De novo Masking of repetitive regions of DNA and RNA Reads from Next Generation Sequencers to identify biomarkers.

SERF CHART

Graphical data visualization of genome analysis results.

SERF DB

Database of results from SERF analysis of Genomes.

SERF UTILS

Cluster SERF results by size, position, motif and totals

Sequence Mapping and Alignment

STAR

Alignment of large high-throughput sequencing reads to a reference genome

BWA

Alignment of Short Reads from Next Generation Sequencers to a Reference Genome.

BOWTIE

Alignment of Short Reads from Next Generation Sequencers to a Reference Genome.

BOWTIE2

Fast Alignment of Short Reads from Next Generation Sequencers to a Reference Genome.

Sequence Variant Analysis

VCFTOOLS

Analytics and utilities for Variant Calling using VCF data.

BCFTOOLS

Analytics and utilities for CNVs, Consensus, Annotations and other Variant Calling using VCF or BCF data.

SAMTOOLS

Manipulation of read alignments including sorting, merging, indexing, retrieval of reads and Mpileups.

Sequence CNV and Mutation Analysis

GATK CNV

Genomic analysis for variant discovery, identifying CNV, SNPs and indels in germline DNA and RNAseq data.

GATK MUTECT

Genomic analysis tool for Calling Somatic Mutations in germline DNA and RNAseq data.

GATK PICARD

Manipulation of High Throughput Sequencing data and formats (SAM/BAM/CRAM/VCF).

GATK ILLUMINA

Process Illumina sequencer data for Base Call Metrics, Lane Metrics, Barcodes, Adapters, Other

Nanopore Sequence Assembly and Consensus Analysis

WTDBG ASSEMBLER

De novo sequence assembler for long reads produced by Oxford Nanopore Technologies (ONT)

WTPOA CONSENSUS

Consensus generator for long reads produced by Oxford Nanopore Technologies (ONT)

CANU ASSEMBLER

Assembler for high-noise single-molecule sequences from Oxford Nanopore Technologies (ONT)

MINIMAP2 ALIGNER

Pairwise alignment (with CIGAR) of long reads produced by Oxford Nanopore Technologies (ONT)

Sequence Quality and Trimming

FASTQC

A high throughput Quality Control analysis of sequenced reads

CUTADAPT

Remove adapter sequences from high-throughput sequencing reads.

CUFFLINKS

Transcript assembly, differential expression, and differential regulation for RNA-Seq.

WGSIM

Generation of sequenced reads from a reference genome with SNPs and INDEL polymorphisms.

Web enabled Cloud scale Bioinformatics

Point and Click Web Interface. No programming to learn. No software to install. No IT knowhow needed. Focus on Biology.

SERF De Novo Sequence Analysis

Discover Needles in a Genomic Haystack

SERF De Novo Sequence Analysis

Discover Biological Markers

De Novo Analysis
Exhaustive
MicroSatellites
MiniSatellites
Satellites
Tandem Repeats
Repeat Masking
Stream Processing

Permutations
Homoploymers
Supersets
Clustering
Positions
Frequency
Nucleotide Richness
Marker Quality

SERF Analysis Workflow

SERF Telomere Workflow

BioSerf Sequence Alignment Workflow

BioSerf Variant Call Workflow

BioSerf Copy Number Variation GATK Workflow

BioSerf Somatic Mutation GATK Workflow

BioSerf RNA-Seq STAR Workflow

BioSerf RNA-Seq TOPHAT Workflow

Bioinformatics for Biologists

Point and Click Web Interface
Easy to Use Workflows
Secure Access
Secure Encrypted Data
Use as Needed Servers
Unlimited Storage

No Programming to Learn
No Software to Install
No Systems to Setup
No IT knowhow Needed

Focus on Biology

On Demand Cloud Computing Resources

2CPU 2GBRAM

Unlimited Storage

2 CPU Cores
2GB RAM Memory
Unlimited Storage
Secure Access
Dedicated Server
Small Scale Analytics

2CPU 4GBRAM

Unlimited Storage

2 CPU Cores
4GB RAM Memory
Unlimited Storage
Secure Access
Dedicated Server
Small Scale Analytics

2CPU 8GBRAM

Unlimited Storage

2 CPU Cores
8GB RAM Memory
Unlimited Storage
Secure Access
Dedicated Server
Small Scale Analytics

4CPU 16GBRAM

Unlimited Storage

4 CPU Cores
16GB RAM Memory
Unlimited Storage
Secure Access
Dedicated Server
Medium Scale Analytics

8CPU 32GBRAM

Unlimited Storage

8 CPU Cores
32GB RAM Memory
Unlimited Storage
Secure Access
Dedicated Server
Large Scale Analytics

16CPU 64GBRAM

Unlimited Storage

16 CPU Cores
64GB RAM Memory
Unlimited Storage
Secure Access
Dedicated Server
Very Large Scale Analytics

32CPU 128GBRAM

Unlimited Storage

32CPU Cores
128GB RAM Memory
Unlimited Storage
Secure Access
Dedicated Server
Very Large Scale Analytics

48CPU 192GBRAM

Unlimited Storage

48CPU Cores
192GB RAM Memory
Unlimited Storage
Secure Access
Dedicated Server
Very Large Scale Analytics

64CPU 256GBRAM

Unlimited Storage

64CPU Cores
256GB RAM Memory
Unlimited Storage
Secure Access
Dedicated Server
Very Large Scale Analytics

72CPU 192GBRAM

Unlimited Storage

72CPU Cores
192GB RAM Memory
Unlimited Storage
Secure Access
Dedicated Server
Very Large Scale Analytics

96CPU 384GBRAM

Unlimited Storage

96 CPU Cores
384GB RAM Memory
Unlimited Storage
Secure Access
Dedicated Server
Very Large Scale Analytics

128CPU 2000GBRAM

Unlimited Storage

128 CPU Cores
2000GB RAM Memory
Unlimited Storage
Secure Access
Dedicated Server
Very Large Scale Analytics

Unlimited CPU

Unlimited Storage

Unlimited CPU Cores
Unlimited RAM Memory
Unlimited Storage
Secure Access
Dedicated Server
Very Large Scale Analytics

Cloud Server Control

Cloud Server Usage

Countries

Institutions

Analysis

MBases

Deployment Models

BioSerf Analytics with BioSerf Cloud

Use BioSerf's secure and scalable Amazon AWS cloud infrastructure to run analytics on genome datasets generated by internal or external NGS equipments. Maintain security and privacy of all analytics and results. No hardware or software to install. Access analysis tools and monitor runs using laptops, desktops or mobile devices. Web User Interface without need for Linux System or Command Line Interface knowhow enables focus on biology.

Deploy

BioSerf Analytics with Onsite NGS

Use your institutions private secure and scalable Amazon AWS cloud infrastructure to run BioSerf analytics on genome datasets generated by onsite NGS equipment. Maintain security and privacy of all analytics and results. No hardware or software to install. Access analysis tools and monitor runs using laptops, desktops or mobile devices. Web User Interface without need for Linux System or Command Line Interface knowhow enables focus on biology.

Deploy

BioSerf Analytics with Offsite NGS

Use your institutions private secure and scalable Amazon AWS cloud infrastructure to run BioSerf analytics on genome datasets generated by offsite NGS equipment. Maintain security and privacy of all analytics and results. No hardware or software to install. Access analysis tools and monitor runs using laptops, desktops or mobile devices. Web User Interface without need for Linux System or Command Line Interface knowhow enables focus on biology.

Deploy