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Hi,
I am trying to visualize our ISS dataset by using the iss_template.yaml but not able to see anything on the webatlas portal after processing. Is there any test dataset that I can get to check t…
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As requested by @cymon, the run information files for batch 3 should be created.
https://github.com/emo-bon/sequencing-data/tree/main/shipment/batch-003-0
https://github.com/emo-bon/sequencing-da…
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Hi,
I am hoping to perform transcriptome assembly using both nanopore long read sequencing data and illumina short read sequencing data. It appears RATTLE only permits the use of long read sequenci…
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Hi @huangyh09,
First of all, huge thanks for developing Vireo!
I've been testing it using a synthetic pool (3 donors), and I've noticed a high number of unassigned cells, particularly from one don…
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I'm working on a project that uses targetted HiFi sequencing of pharmacogenetic genes to deliver personalised advice regarding medicine dosage to patients. I am trying to use HiFiasm to do a phased as…
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I am working on calling variants in spatial transcriptomics data (10x Visium). Since the sequencing depth of spatial transcriptome is poorer than single-cell data, I want to treat all reads in the bam…
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Running run-import with the existing yaml throws an error because it is setting has_input to metagenome_sequencing_activity_set to: None
This is no longer allowed by nmdc-schema -see this [commit](ht…
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Paper text:
> All raw sequencing data in FASTQ format are available in the NCBI Sequence Read Archive (SRA) BioProject database under accession number PRJNA956585 as BioSamples SAMN34224450–SAMN3422…
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**User story**
As an SSR I would like to see sample runs that have failed Data QC in the report so that the failure rates are easily visible.
**Who are the primary contacts for this story**
Rich C
*…
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Hi y9c,
I run the pipeline for 3 input (mESC-WT_polyA-RNA_Input_rep1/2/3.fastq) and 3 treat (mESC-WT_polyA-RNA_Treated_rep1/2/3.fastq), run with 48 cores, the bowtie2 has a long running time in mappi…