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I am wanting to visualise reads that map to each isoform by using the --generate_map option from collapse. The reads the supposedly support this novel isoform (225532d7-ec74-4839-9708-8c26168366cb_ENS…
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when I run the code isONclust2 sort -B 200 -v 1.fq.I en countered this problem:
isONclust2 version: v2.3-e9da596
Batches output directory: isONclust2_batches
Minimum batch size: 200 kilobases
Km…
wenmm updated
3 years ago
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Hello,
Thank you for setting up this repo! I was wondering if this data has been published yet and if so what paper we can cite to use this data?
Cheers,
Richard
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Based on the [MAESTRO paper](https://genomebiology.biomedcentral.com/articles/10.1186/s13059-020-02116-x#Sec12), my understanding is that a peak that is in the exons or promoter region of more than on…
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Hi， @yollct
`subprocess.call("wget https://zenodo.org/record/7228475/files/tutorial_alt_sorted_bc_tpm.csv?download=1 -O alt_sorted_bc_tpm.csv", shell=True)
subprocess.call("wget https://zenodo.org/…
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The xml chunk for this variant is:
```xml
current
NM_000162.5(GCK):c.449T>C (p.Phe150Ser) AND Maturity-onset diabetes of the young type 2
current
criteria provi…
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Hi @Magdoll ,
I created the environment and installed all the packages as per the tutorial.
I ran the following command:
`$ python sqanti_qc2.py --aligner_choice=minimap2 ~/pacbio/testdir/mapped.…
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Hi, there
I have used the scallop to assemble the illunima data with the reference! The bam file were created by the codes:
/home/softwares/miniconda3/bin/hisat2 -p $nprocs -x ${genome}/genome.fa…
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Hi,
This is not an issue, but I'm just looking advice on this problem I've been trying (with limited success) to tackle on my own for a while.
First, I've been using salmon for years and I love …
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Hi,
Thank you for the really nice software! I do have an issue with getting proper gene names out from a FASTA file, and have not been able to find any information regarding how the gene name is r…