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MGI-tech-bioinformatics / DNBelab_C_Series_HT_scRNA-analysis-software

An open source and flexible pipeline to analysis high-throughput DNBelab C Series single-cell RNA datasets
MIT License
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RNA velocity分析 #71

Closed tyyl622 closed 1 month ago

tyyl622 commented 1 month ago

请问技术老师，如何使用RNAvelocity_matrix文件夹中的内容，创建Velocyto.R分析所需的loom文件呢？ 本来我想自己跑velocyto run命令，但发现找不到能用的bam文件....所以只能请教技术老师~

lishuangshuang0616 commented 1 month ago

Is there no anno_decon_sorted.bam file in the output directory?

tyyl622 commented 1 month ago

Is there no _anno_decon_sorted.bam_ file in the output directory?

有，但是使用RNAvelocity_matrix文件夹里的barcodes文件和这个bam文件去跑velocyto run，会报错，提示bam文件中没有对应的barcode。

lishuangshuang0616 commented 1 month ago

67 Refer to this, bam needs to be processed

tyyl622 commented 1 month ago

67 Refer to this, bam needs to be processed

好的，谢谢老师，我试一下

tyyl622 commented 1 month ago

67 Refer to this, bam needs to be processed

可以了，谢谢老师，都怪我没仔细翻看以往的issues...给您添麻烦了！

lishuangshuang0616 commented 1 month ago

Due to the bead merging in C4, the default CB is the cell barcode before merging, and the cell ID after merging is DB. However, the parameter in Velocyto is fixed as CB, so adjustment is needed. Feel free to ask if you have any questions. :smile: