Does anyone know an algorithm for INDEL analysis using more than 30 complete (prokaryotic) genomes?

What is/are the best ML classifier(s) for Sentinel2 images?

Hi I am trying to segment a sentinel2 image. At this stage, I want to run a binary classifier that assigns each pixel to either farm or non-farm pixel. For this purpose, I have 4 10m bands...

15 February 2021 3,596 9 View

Plasmid amplification in S2 cell?

When co-transfect S2 cell with selection vector (pCoHygro or pCoBlast ) to make a stable cell line, does the gene integrate into the genome or just like E.coli? How do the plasmids amplify within...

09 February 2021 5,423 1 View

How to choose the Hidden Layers Number and RBM Size in a DBN network?

Hello, When using a Deep Belief network (DBN) for images classification, how could we choose the number of hidden layers (number of Restricted Boltzmann Machines) and nodes (RBM size) in a hidden...

09 February 2021 4,618 5 View

Is there any similarity index between two time series?

Hi We have two time series dataset. For example mean daily temperature from two stations. Each of them have 30 data for a month. T1={ t1 , t2 ,... , t30 } T2={ t1 , t2 ,... , t30 } Now we want to...

06 February 2021 6,434 7 View

How can i improve my DNA purity for whole genome sequence that has high 260/230 ratio ?

I am performing whole genome sequence for gram negative acinetobacter baumannii using two platforms illumina miswq and oxford nanopore. Thus i require a very high yield and high purity. I am using...

31 January 2021 355 2 View

Matrix based scientific data analysis: extrapolating to matrices of sets?

Data sets, when structured, can be put in vector form (v(1)...v(n)), adding time dependency it's v(i, t) for i=1...n and t=1...T. Then we have a matrix of terms v(i, j)... Matrices are important,...

30 January 2021 9,295 6 View

Is there any alternative to BUSCO for searching orthologues within genomes available?

I have a need to search for single-copy conservative orthologs within several plant genomes and used BUSCO tool for that. However, I found that the results produced by different versions on the...

29 January 2021 7,764 6 View

How to annotate list of gene names using Bash/R?

I have a list of gene names from deep sequencing from a constructed CRISPR knockout library. I was hoping to write a script to annotate all the gene names with a quick description of product...

27 January 2021 8,035 1 View

When is the right time to stop training a classification algorithm?

In this example giving 400 samples looks like there is an accuracy of 91.5% while training beyond that point, accuracy is getting decreased. Are 400 samples enough to keep for this example? If...

27 January 2021 5,657 3 View

Question regarding investigation of the nature of bacteria: whether it can cause human diseases or not?

Hi all, Considering that one has the whole genome sequence (annotated) of a bacterium and wants to know if it has the potential to cause human diseases, what steps would you recommend...

26 January 2021 8,732 3 View