Hi all, Can anyone recommend me sample preparation methods for performing both illumina truSEQ and PacBio sequencing on the same sample?

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How to compare two Alpha Co-eff (same measure) in two indep samples in SPSS?

My samples are different in size and I need to see if the alpha coefficient in one group is significantly different from that in the other group. My data are in SPSS (I am not an R user,...

28 February 2021 2,688 4 View

Can bio-decomposer be a successful alternative to reduce residue burning?

To maintain the proper crop plan most of the times there is not enough time to make the field ready for the next crop. In this particular context , can bio-decompser be a solution? What about...

16 February 2021 7,068 24 View

Consensus sequence from ClustalX?

I am doing multiple sequence alignment to design primer for my gene. Can anyone tell me how to select the consensus sequence after alignment. I am using ClustalX for the alignment.

04 February 2021 8,872 2 View

After cutting bands having low molecular weight peptides obtained from SDS-PAGE,is it possible to elute these peptide(s) without digesting in trypsin?

Basically, I want to get the sequence of peptides. I assume, digesting these peptides from each band may give me a different sequence than the original through LC-MS analysis. If digestion doesn't...

30 January 2021 5,482 3 View

Are there existing studies in economic sociology that have applied Kalyan Sanyal's theoretical framework as a methodological basis?

To be precise, I am looking for studies on informal labour that have taken on board Sanyal's category of the Need Economy and his 'Politics of Exclusion' in studying the political-economy of...

26 January 2021 4,219 3 View

What software/app can I use to generate annotations for localizing hand joints in an RGB image?

I wanted to know if there is any software/app that helps to easily annotate hand joints in an RGB image manually.

28 October 2020 9,693 3 View

Can I use tryptone or tryptone peptone in place of trypticase to grow my microbe culture?

The ATCC media preparation mentions trypticase and I am not able to find trypticase from any company like HiMedia, Merck or Sigma

26 October 2020 1,822 6 View

What are the genetic/physiological differences between deep water rice cultivars of North-Eastern India from that of South East Asian Countries?

Deepwater rice cultivars found in various regions around the world have their own differences. Please mention how the deepwater rice cultivars of North-Eastern India varies from that of Southeast...

23 October 2020 1,333 3 View

How to calculate the dimensions and frequency, etc. of a pulse tube for required cold/hot temperatures?

Require to know the methodology for calculating dimensions (Lenght, diameter), operating frequency, etc. of a simple pulse tube refrigerator. Reference to handbook or manuscript would also be helpful.

29 September 2020 2,191 2 View

What is the effect of COVID-19 on agriculture specifically the prolonged lockdown that the farmers of whole world have faced?

I want to know how it is affecting agriculture around the globe. Because its a platform in which people from different parts of the world unites.

24 September 2020 400 27 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