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Hello,
I gave spacegraphcats another go, and tried to run bits of the code separately so I can understand where things go wrong. This time it's running out of memory at the catlas building phase (s…
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What are the steps we want to the pipeline to achieve? What are the tools?
Steps:
- basic QC
- [FastQC](https://snakemake-wrappers.readthedocs.io/en/stable/wrappers/fastqc.html)
- [Mu…
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hi there, I'm having an issue I hope you can help with. the checks were okay, but there is an error during the training process. I attached the log file,(let me know if you can access that alright). …
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I am working on a CRISPR data treated by two sgRNAs and sequenced with targeted sequencing. The distance between the two sgRNA is 3000bp which is much longer than amplicon. The targeted area is the w…
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I have a whole genome em-seq methylation library with dual indexes as well as methylated UMI's at the beginning of each R1 and R2. These are from Twist and were used to make EM-seq libraries. I am not…
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I would like to run the seq similarity search against the homo sapien samples in the NR dataset. For that I downloaded the dataset as follows:
`mmseqs databases NR nr tmp`
Then I attempted to f…
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Hi, I'm using FreeHiC for simulating Cow Hi-C data.
For fastqFile data using during training steps, SRR6691720 data (https://www.ncbi.nlm.nih.gov/sra/?term=SRR6691720) was used and other parameters…
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Suggested yeast dataset of interest to me: Ribosome profiling data [GEO: GSE131176](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE131176).
From *Condensation of Ded1p Promotes a Translation…