We got a whole genome sequenced on PacBio sequencing platform. Do we parallely need to sequence it on Illumina platform for obtaining better coverage?

More Swati Verma's questions See All

Which SAR dataset to use for generating coherency matrix and performing target decomposition (Description) ?

Working on chandrayaan-2 DFSAR data, there are three datasets available: 1) Slant range image data product: The slant range complex image file. Each pixel is represented by two 4-byte floating...

02 March 2021 8,481 3 View

Does anyone use antinuclear antibody (ANA) and anti-Phospholipid antibody ELISA kit for Non Human Primate serum samples?

I am looking for anti-nuclear antibody (ANA) and anti-Phospholipid antibody ELISA kit for Non Human Primate serum samples. Any suggestions highly appreciated. Thank you.

28 February 2021 6,512 3 View

How to design a boost converter for a mppt controller?

I have a doubt on how to select the inductor and capacitor value when I want to implement MPPT controller. This is because we always take a maximum output voltage and current but in this case, we...

28 February 2021 3,637 2 View

How to identify what type of fillers are in a polymer?

Hello everyone, I have some PHAs blended with fillers and nucleating agents, yet I don't know what kind of fillers or nucleating agents. The producer has shut down and there's no way to get in...

24 February 2021 1,356 8 View

How to calculate refractive index (n and kvalue) against energy (in eV) data for alloyed nanomaterials through Independent Phase Approximation method?

Suggest me the method or some other software to calculate the above said data for nanoparticles.

21 February 2021 3,350 7 View

How to find the air side pressure drop in a spiral fin tube bundle cross flow heat exchanger?

How to find the air side pressure drop in a spiral fin cross flow heat exchanger? The pressure difference at the inlet and outlet is very low compared to the experimental results, which I...

18 February 2021 1,109 2 View

Any methods to train a neural network with random (stochastic) and non-measurable variable?

Dear scholars, I was wondering if there are any scientific methods to train a neural network or ANFIS when one of the input variables is stochastic (random) and more importantly non-measurable?...

17 February 2021 1,909 3 View

What is best technique to quantify necrotic cell death of specific cell populations?

I currently using FACS (Aurora Cytek) to quantify necrotic Gr1+ cell death from the spleens of immune competent mice. I target Gr1+ cells in the spleens of tumor-bearing mice using a photodynamic...

08 February 2021 733 6 View

Can I modify vermiculite or perlite by adding nutrients to control a certain situation?

I need to assimilate a determining condition for the plant. However, I need to ask you if it is possible to change the properties and concentration of plant nutrients in this material like perlite...

04 February 2021 8,616 11 View

How to generate MATLAB code from ANFIS model?

Dear scholars, I was wondering how can I generate MATLAB code of an ANFIS (FIS) model? I need to integrate my ANFIS (FIS)/Fuzzy logic system into another MATLAB code to render optimizations. Do...

04 February 2021 6,098 4 View

Has anyone used the Illumina ITS1 primer sets?

Hi everyone, Illumina provides a list of primers to amplify with high taxonomic coverage the ITS1 region for further fungal sequencing, but I cannot find the exact amount necessary of each...

25 February 2021 6,969 3 View

Can I use FLEXBAR to detect and remove barcodes out of my short reads without demultiplexing ?

Hello, I have demultiplexed my short reads and I have removed the Illumina adapter left in the sequences and now I need to remove the barcodes used by the sequencing centre from my reads. I have...

22 February 2021 9,873 3 View

Qiime2- No reads passed the filter. How to set the trunc value?

Hi, I am working on some 16S sequencing data, and seems some of them are low quality. I am not sure how to set the trunc value in dada2. qiime dada2 denoise-paired \ --i-demultiplexed-seqs...

30 January 2021 6,213 3 View

How do I get ConsistencyDupSNP.sh file required for genotype consistency quality control step of genotyping data obtained from GSA 24 v2.0 ?

Genotyping data is from Illumina Global screening array 24 v 2.0 and ConsistencyDupSNP.sh file contains list of pair of duplicated SNPs in GSA24 v 2.0.

18 December 2020 1,966 3 View

Could anybody provide insights the best tools to create a custom database for taxonomy assignment of metagenomic data?

I am interested in the different tools that can be used to create custom databases for targeted sequencing and how to trim the databases based on the amplicon size? Also, should custom databases...

02 December 2020 3,105 3 View

Format Mothur database to run through dada2?

I am looking to run illumina miseq data through dada2, but the limited identification of this gene means there are no pre-build databases. I have a database built in MOTHUR format, does anyone...

30 November 2020 8,228 3 View

How do I transform the "Transcripts" into the "Gene symbol"?

I downloaded the expression matrix data "GSE143416_Brain_data_TPM.txt.gz" of GSE143416 from Gene expression omnibus ( https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi). However, the first column of...

30 November 2020 1,304 3 View

How do you design heterogeneity spacers for primers in amplicon metagenomic studies?

Adding heterogeneity spacers to primers used for Illumina based amplicon studies has proven to improve read quality by increasing bp diversity on the flow cell during sequencing. I have seen two...

01 November 2020 9,071 3 View

Illumina vs. BGI/MGI, MGISEQ-T7 vs. NovaSeq 6000, which to choose?

I am looking for opinions/recommendations of NGS Platforms (Illumina vs. BGI/MGI) from people that had opportunity to work on both hardware: MGISEQ-T7 and NovaSeq 6000 or analyze data from both....

04 October 2020 8,125 1 View

Is it possible that a IncX and IncF plasmid fused?

I recently performed plasmid extraction and nanopore sequencing. I have found what looks like a plasmid with replicon types IncX and IncF. Even with spAdes, canu, unicycler (illumina and nanopore...

29 September 2020 7,778 2 View

Abhijeet Singh

If you want to complete the genome sequence, then that would be the way to go. Or else it would be just a draft.

Swati Verma

Thank you Abhijeet

Ronan O'Toole

Would be advisable to sequence with an additional platform, in particular Illumina, to increase genome coverage and verify the assembly and sequence fidelity.