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Bioinformatics : Recent Questions and Answers (Page 31)

Find answers to your questions about Bioinformatics or help others by answering their Bioinformatics questions.

What is the typical host-to-bug DNA ratio found in nanopore sequencing without amplification?

I'm interested in sequencing a sputum sample using an ONT MinION without performing any type of DNA amplification.Has anyone found a good reference (or anecdotal evidence) for a range...

Asked on 03/24/2021 by TimD1

1 answer

Block wise protein imputation

I am currently working on a dataset that contains 50 samples (10 samples * 5 blocks). The features of the date set are:The data is perfectly balanced between blocks, with...

Asked on 03/23/2021 by Whateversclever

2 answer

Is there a database of protein sequences/structure along with their melting temperature?

Such databases have been constructed for example in here or here. But I can't find them anywhere online. Can someone point me to where...

Asked on 03/22/2021 by swa_mi

1 answer

Finding common and unique data set by comparing two files based on their column and to split the columns multiple strings to print in output

I have very large sizes tab-delimited .vcf files and want to match these two / or 3 files based on their position and print to a new .csv file...

Asked on 03/22/2021 by Nitha

1 answer

RAD Seq Data Analysis without barcode

I received a ddRAD Seq data from my supervisor without barcodes and restriction enzymes. I asked him for both and he said I don't need it since the data has...

Asked on 03/20/2021 by BioBash

2 answer

>My counter is counting genotypic combination occurences more than once, how do I ensure it counts one combination and doesnt count it again?

mutations = ['A222V', 'D614G', 'E484Q', 'E780Q', 'G476S', 'L18F', 'N439K', 'S477', 'S477N', 'T478I', 'V483A']combinations = []for M in...

Asked on 03/20/2021

1 answer

FASTA and PDB: How to specify chain?

For proteins that have multiple chains (e.g., 1EMS), is there an easy way to specify which chain I want to use for blastp? I cannot imagine that...

Asked on 03/19/2021 by lazer-guided-lazerbeam

2 answer

Find rsIDs for GRCh37 SNPs and rsIDs for GRCh38 SNPs and compare for overlap

I have a long list of variant IDs that I generated as a result of research done one GRCh37 genomes (e.g. 13_28025615_G_C_b37). I want to get their rsIDs and compare...

Asked on 03/19/2021 by CelineDion

2 answer

How can I use my Myheritage DNA results file for further analysis?

I had my DNA tested by Myheritage and they sent me a csv file with RSID, Chromosome, position and result (which base) with about 700,000 rows.I understand most analyses...

Asked on 03/19/2021 by user3390486

1 answer

Plink 1.9 equivalent of --score sum in Plink 2.0

I have previously performing Allelic scoring in Plink 1.9 using: plink --score sum sumstats.txtHowever, it seems this has changed in Plink 2.0. What is the equivalent function for...

Asked on 03/17/2021

1 answer

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