Chuang1118
Chuang1118
Hello Trust4, Thanks for the most flexible tools. My team developed custom 5' spatial BCR. Now I'm in the stage of preprocessing. Spot like mini-bulk(5-20 cells) with additional spatial barcode....
Hello trust4, Version TRUST4 use Output all the required fields for AIRR format https://github.com/liulab-dfci/TRUST4/pull/138 CMD ``` run-trust4 -f {params.REF1} -t 24 --ref {params.REF2} \ -u {input.fastq1} \ --barcode {input.fastq2} \...
Hello, I can't get complete output using migmap. loaded 134085 reads. Processed 133598 reads, is Infinite Loop. So my output is incomplete. Could you please help me correct this bug!...
Dear Author, Thanks for this new API. As you mentioned in your paper, the paragraph of **Hierarchical optimization for highly correlated cell types**. "we ran AutoGeneS separated CD4+ and CD8+...
**Describe the bug** Hello Author, I am following your tutorial https://github.com/theislab/ncem_tutorials/blob/main/tutorials/type_coupling_visium.ipynb In total, I have 3 slides 10x visium using the same preprocessing, There are 2 samples I've got error...
Hello ncem team, Thanks to develop NCEM. I'm trying out NCEM tool for downstream analysis(the receiver/sender analysis) of 10X visium with cell2location. following this tutorial: https://github.com/theislab/ncem_tutorials/blob/main/tutorials/type_coupling_visium.ipynb e.g. adata ``` AnnData...
Hello, modkit version: v0.4.4 I'm trying to do a Bigwig conversion, but I got an error message. thread 'main' panicked at /root/.cargo/registry/src/index.crates.io-6f17d22bba15001f/bigtools-0.5.5/src/bbi/bbiwrite.rs:819:14: Expected to always send.: TrySendError { kind: Disconnected...
Hello, My recent RNA004 direct RNA seq data (including two replicate samples) has done using the following: 1/ dorado basedcaller is aligned with transcript ID. 2/ Constructing bedMethyl tables by...