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updated 21 hours ago by
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Recent Replies
Comment: Limma model gives weird results
by
ATpoint
87k
> However I got 0 significant contig.
That alone does not necessarily indicate a problem. There could in reality be non differences, or no…
Answer: Source for `transcript_name` in GTFs
by
Jorge - Ensembl
▴
10
Hi! [Transcript naming][1] is part of the [Ensembl gene annotation pipeline][2]. There will be further review for species [annotated both b…
Comment: How to check normal BAM_files before create a Panel Of Normals (PoN)
by
GenoMax
150k
Do you have enough samples to create a private PON? GATK recommends a minimum of 40. If not you can use public 1000 genomes PON.
https://g…
Comment: Rna-seq data
by
GenoMax
150k
You have to keep in mind that the portal you link only aggregates datasets for : **on Infectious and Immune-mediated Diseases (IID)**
Comment: How to check normal BAM_files before create a Panel Of Normals (PoN)
by
Pierre Lindenbaum
166k
> Please do not paste screenshots of plain text content, it is counterproductive. You can copy paste the content directly here (using the c…
Comment: How to check normal BAM_files before create a Panel Of Normals (PoN)
by
1769mkc
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1.3k
add your command as text not as image
Comment: What is the best way to know if a pair of genes is random?
by
Ana
▴
10
Yes, but the results are not exciting... I appreciate your help though!
Comment: Is vg toolkit suitable for haplotype calling?
by
Pau
•
0
What I mean is: from a set of long reads and a pangenome with no haplotype paths (because it was built with unphased vcf) obtain the differ…
Comment: How to merge heterogeneously normalized RNA-seq datasets for meta-analysis?
by
ATpoint
87k
Because data are heterogeneous, on entirely different scales, assay (vastly) different amounts of genes and are inherently incomparable qua…
Answer: how to handle infinite M-values in methylation array data
by
Basti
★
2.1k
This is a known problem happening with some of the normalization methods. As long as the detection P-value is ok, you can keep these probes…
Answer: Free and redistributable genomic data sets?
by
Meeru
•
0
Yes, check out RefSeq (NCBI), Ensembl, and UCSC Genome Browser they offer genomic data under permissive licenses that generally allow redis…
Comment: promoter and insulator data download
by
ehaag
▴
20
You can find promoter and insulator data or other gene expression data in the NIAID Data Ecosystem: https://data.niaid.nih.gov/
The interf…
Answer: Free and redistributable genomic data sets?
by
ehaag
▴
20
You can use the NIAID Data Ecosystem to search for genomic data: https://data.niaid.nih.gov/
And you can filter results by conditions of…
Answer: Rna-seq data
by
ehaag
▴
20
The NIAID Data Ecosystem allows you to search across dozens of repositories (including GEO, but about 40 others as well) to find RNA-seq da…
Comment: Where to find biomanufacturing data?
by
ehaag
▴
20
The NIAID Data Ecosystem has a searchable interface for finding biomanufacturing data, as well as data related to drug trials, pharmaceutic…
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