EBI MGnify metadata database for local query
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
How download bacterial gene sequences for specific country or region?
written by Anisur Rahman •Hello, I have a gene name (also sequence) for a specific bacteria. I want to download all nucleotide sequences for this gene of that bacteria …
-
Minion RNA-seq local basecalled .fast5 dataset
written by adeline •Does anyone have or know where I can find Minion ONT 1D RNA-seq local basecalled .fast5 dataset? I'm working on developing a pipeline for differential …
-
How to get Taxonomy and Taxon ID for an Accession number using R/Python?
written by Frieda •Hello, I have a database which contains Taxonomy and Taxon ID for each Accession Number. The database already has millions of accession numbers and their …
-
NCBI SRA AWS AMI
written by noodleI came across the below NCBI website with instructions to access the SRA dataset through AWS, but it seems the AMI they reference no longer …
-
PacBio file type from NCBI run download
written by noodleLet's say I download a pacbio run file from the NCBI SRA dataset shown here; https://trace.ncbi.nlm.nih.gov/Traces/sra/?run=SRR9849809 download link here; https://sra-download.ncbi.nlm.nih.gov/traces/sra2/SRR/009618/SRR9849809 Can someone tell me the …
-
Is there a way to do batch queries to IMGT HighV-Quest db?
written by uki •We have several million sequences divided across multiple (20+) files varying in size, some of which may contain up to 2M sequences. I've realized that …
-
creating local database using ncbi ftp files in the clc main worker bench
written by samuelksm •<p>I want to create a local database using the ncbi database ftp files, am using clc main work bench to analyse my sequences (proteins), for …
-
Are There Any Manual Curated Human Tf-Tf Interaction Database?
written by michaelchen333333 •<p>I have an ESC-related TF dataset (about 13 TFs), I would like to know if each of the ESC-related TF interacts with any other "TF", …
-
How To Import The Local Eset.R File To R?
written by jlshi.nudt<p>I've download the eset.r file from ArrayExpress database, but how can I import the eSet.R file to R/BioConductor? The package 'ArrayExpress' package can download dataset …
-
Alternative Splicing And Transcript Diversity Databases
written by Pierre<p>Hey guys, </p> <p>EBI has this very nice database for fasta format sequences of all exons and transcripts. Unforuntanetely, these data are available currently only …
Have you tried the
biomaRtpackage for R? What are your exact needs out of this database/package?