-
I am trying to incorporate `librarian` into our [quality-check-standard pipeline](https://github.com/stjudecloud/workflows), but there doesn't seem to be a feasible way to run this at scale.
* I assu…
-
https://microbiomedata.github.io/nmdc-schema/Biosample/#class-biosample is trying to generate a YUML diagram from this URL:
https://yuml.me/diagram/nofunky;dir:TB/class/[TimestampValue],[TextValue]…
-
Hi, I'm trying to use the public data as mentioned in the supplementary file: H3K27ac-ChIP: ENCFF384ZZM and DHS: wgEncodeUwDnaseK562AlnRep1.bam, wgEncodeUwDnaseK562AlnRep2.bam. And I also change the r…
-
Hello,
Executed code:
shapemapper --name example --target ../FASTA/RNA.fasta --out RNA_shapemap --amplicon --modified --R1 100mM_1M7_RNA_R1.fastq --R2 100mM_1M7_RNA_R2.fastq --untreated --R1 DM…
-
When we say that some `Biosample` has `total_strontium` `{'has_numerical_value': 15, 'has_unit': 'ppm'}` , we are saying that the domain includes, at a minimum, the `Biosample` class. Possibly it incl…
-
https://mp.weixin.qq.com/s/QXZgq-kefkiX1GwtKxvIUw
ixxmu updated
2 months ago
-
Dear authors,
As ATAC and DNaseI assess open regions of the genomes, would a model trained on ATAC+(other epigenetic 1D maps mentioned in the Epiphany paper) be better suited than DNaseI for the pr…
-
https://mp.weixin.qq.com/s/BEJSB_WgAjrfxo-_SVienA
ixxmu updated
4 months ago
-
- [x] Create the first version of input schema to bedboss (PEP will be used in PEPhub)
- [x] Sample name will be a digest of the bedfile, and link will be derived
Steps:
1. Investigate what meta…
-
Hi,
I have a similar issue as in #153 and #169, while training the bias model for my Drosophila DNase-seq data. I have mapped my raw fastq files with Bowtie and MACS2, and I didn’t do any shifting…