User: gayachit

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gayachit200
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India
Last seen:
6 months ago
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6 years, 6 months ago
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Posts by gayachit

<prev • 51 results • page 1 of 6 • next >
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Comment: C: metagenomic bacterial identify
... Have you gone through online materials that are available. There are so many bioinformatics analysis guides available. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2593568/, https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3351745/, https://www.researchgate.net/post/can_someone_guide_me_in_processing_th ...
written 7 months ago by gayachit200
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Comment: C: metagenomic bacterial identify
... What have done so far? What is fastS format? ...
written 7 months ago by gayachit200
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Comment: C: help me creating Prokka custom database
... This should help you: https://github.com/tseemann/prokka#databases https://github.com/tseemann/prokka/issues/210 ...
written 7 months ago by gayachit200
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Comment: C: Count duplicate sequence in fasta file using python
... Hi You should go through this link: https://stackoverflow.com/questions/55226949/how-to-get-the-count-of-duplicated-sequences-in-fasta-file-using-python You can easily redirect the output to csv or as you want ...
written 7 months ago by gayachit200
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Answer: A: Plasmid Phylogeny from Whole genome sequencing
... The best would be to sequence the plasmids and do a phylogeny but if you only have whole genome data, I think you would have to extract the plasmid sequences using tools like plasmid finder or plasmid seeker and do a phylogeny the same way as any other using tools like MEGA and MAFFT etc. For refere ...
written 8 months ago by gayachit200
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Answer: A: can I map multiple (>2) fast reads against assembly in bwa?
... Hi There are some posts similar to yours. Have a look. https://www.biostars.org/p/300534/ , https://www.biostars.org/p/134395/, https://www.biostars.org/p/377719/ ...
written 8 months ago by gayachit200
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Answer: C: Difference between genotype 0/1, 1/0, 0/2, 2/0?
... You need to read the manual carefully. Its there on page 5 under genotype fields. ...
written 8 months ago by gayachit200
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Comment: C: How to clean multiple protein sequences alignement in order to make a phylogenic
... MEGA itself has options to add, delete, trim sequences once you've aligned them. You can see the conserved and variable regions as well. Also you can refer : https://www.researchgate.net/post/Best_program_to_align_and_clean_up_sequences2 ...
written 9 months ago by gayachit200
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Comment: C: Extract 16S rRNA V6 region
... Read this: https://mothur.org/blog/2016/Customization-for-your-region/ Follow same for getting start and end position for V6 region ...
written 9 months ago by gayachit200
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Comment: C: Detecting Biomarkers from Time Series Gene Epression data
... Biomarker for what? Time series experiments usually have some external stimulus or process. It will be difficult to get a biomarker unless you narrow it down. As suggested by @ashish the table has a pretty good summary. ...
written 9 months ago by gayachit200

Latest awards to gayachit

Scholar 9 months ago, created an answer that has been accepted. For A: How to get the phastcons score for protein coding genes and lncRNAs?
Scholar 9 months ago, created an answer that has been accepted. For A: How to get the phastcons score for protein coding genes and lncRNAs?
Scholar 10 months ago, created an answer that has been accepted. For A: How to get the phastcons score for protein coding genes and lncRNAs?
Popular Question 3.8 years ago, created a question with more than 1,000 views. For How to run Genscan on large files
Popular Question 3.8 years ago, created a question with more than 1,000 views. For Do we need to estimate effective transcriptome size before sequencing?
Popular Question 3.8 years ago, created a question with more than 1,000 views. For Need Help with RNA secondary structure folding

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