What is the best practice to perform LEFSe? In qiime2 or transforming qiime2 object into LEFse obejct?
There is a tool. However, it easy to error. https://github.com/gblanchard4/qiime_to_lefse Might you have better suggestion?
Hi Wang,
I think you can retrive .biom files from QIIME2 and use it for making the input file for LEFSe, try LEFSe from huttenhower galaxy server.
Best Wishes,
Pankaj
Thanks
You're welcome
I'm involved in a study of odor control technologies for municipal wastewater treatment plant. One of the control options involves a chemical 2-stage (acid/alkaline) packed bed scrubber. The...
03 March 2021 3,661 2 View
Is DCFDA appropriate for measuring total ROS production, or can it only detect certain types of ROS? If I want to measure total ROS production, which dye should I use?
01 March 2021 9,447 3 View
Hello every body Does any one has any idea to help me choose a reasonable basis set for intermediate metal ions (i.e Fe2+, Mn2+, Cu2+ and exc.) interactions with guanine or other DNA organic...
01 March 2021 6,187 2 View
01 March 2021 7,254 3 View
Hi dear researchers I connected a rigid body into the part of my structure by tie constraint and then I added displacement to rigid body, in static general step every thing is fine and these two...
28 February 2021 3,442 2 View
27 February 2021 2,753 4 View
I want to get a average structure from a pdb file containing multiple models. I used the command below: gmx cluster -f input.pdb -s topol.tpr -cutoff 20 -method gromos -av GROMACS...
25 February 2021 6,314 1 View
For example in one research article the Elemental analysis values of COF-TpPa-1 ( Triformylphloroglucinol (Tp) (63 mg, 0.3 mmol), Paraphenylenediamine (Pa-1) (48 mg, 0.45 mmol) are as follows...
24 February 2021 1,265 6 View
24 February 2021 4,833 3 View
Currently trying to obtain as many pieces of research as possible for my dissertation around the implementation of DBT within the inpatient unit for those with a diagnosis of BPD. Primarily...
23 February 2021 5,654 2 View
Good afternoon, I recently used OmniLog from BIOLOG for my experimentations : I tested the metabolism of different strains on 2 types of plates. I have 16 strains of 3 different groups...
02 March 2021 3,584 1 View
and Can the gut microbe be used for the treatment or diagnosis of liver fibrosis?
02 March 2021 557 2 View
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
Warm greetings My name is Ayichew S. and I am doing my Ph.D. in Medical Microbiology (on Human papillomavirus). At this stage, I have almost completed a clinical sample Cervical swabs)...
25 February 2021 1,660 3 View
Warm greetings! My name is Ayichew S. and I am doing my Ph.D. in Medical Microbiology focusing on Human papillomavirus). At this stage, I have almost completed a clinical sample (Cervical swabs)...
25 February 2021 3,612 3 View
Hello everyone, For part of my PhD project, I'm hoping to grow some lactobacillus species in the lab so that I can create standard curves for a qPCR quantification of a faecal sample. However, I...
24 February 2021 3,157 6 View
I am aware of a study that has compared the use of citrated and defibrinated sheep's blood in microbiological media (Hair Sheep Blood, Citrated or Defibrinated, Fulfills All Req... ), but can...
10 February 2021 5,927 1 View
I will be using the lowered pH broth for MIC test of some disinfectants, and I do not want the acid to have any interfernece with MIC results.
03 February 2021 6,959 4 View
Due to their ubiquitous nature, there is a tendency of the presence of microbes in a given mineral(s). For instance, if microorganisms that love the of pH less than 6 in the pH value, is isolated...
03 February 2021 4,630 10 View
Hi all, How would you use qPCR to quantify the amount of a particular bacterial species in a sample experimentally? I understand you could use specific primers for the 16s V region of a...
01 February 2021 7,153 4 View