xlei

Hi, All, I wonder if the Sickle program could filter out reads based on the quality of the first 3 bases? I have a custom barcode of 3 bases in...

Hi, developer, Please delete this post. I tried to delete my post but there is no such option provided. Thanks,

whippet index failed, link to download the hg38 GTF2.2 on this website does not work

1

Dear All, I encountered an error while running whippet-index.jl. The error appears to be due to my GTF file not being in the 2.2 format. Could you please let me...

Hi, All, In the method section, the introduction to the MA plot states: "MA Plot: Average gene expression was identified by calculating the mean of the normalized gene expression values...

Hi All, Is there a way to download BAM files from BioJpies after the analysis is completed? Additionally, is hg38 used in the alignment for human cell lines? Thanks, Xiao

Hi, All, Is there a way to know if an event in the.diff.gz output was calculated using unannotated alternative junctions? Although I built an annotation (GTF) only index, according to...

Bug Report: Kallisto quantification of fastq failed

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### Describe the bug After I clicked "Start Kallisto quantify (paired-end reads)", I encountered the error message below: Traceback (most recent call last): File "rnalysis/gui/gui.py", line 4470, in finish_generic_job File...

Feature Request: differential expression of transcripts

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### Is your feature request related to a problem? Is there a way to do differential expression of transcripts (e.g. similar to DEseq2 but for transcripts) with RNAlysis? ### Describe...

I am using Bowtie 1.3.1 (ARM64-compatible version installed via Conda) on a Mac Studio with an M1 chip. Bowtie runs successfully without the` --best` option but fails when the `--best`...

Instead of forcing each cluster to be assigned to a single feature category based on priority, is it possible to assign a "multiple" category if a cluster overlaps with more...