Open hjoshi-nyscf opened 1 year ago
Hello @hjoshi-nyscf, can you send your CRISPRi_v2_human.trim_1_39_forward.fa
to jeong.compbio@gmail.com?
Thank you,
Hyun-Hwan Jeong
Hi @hjoshi-nyscf,
GTTTAAGAGCTAAGCTGGA
would allow CB2 can quantify._
as a delimiter of gene symbol and guide name, and using underscores twice every guide name may cause the problem. I will post a solution today or tomorrow regarding it.Hyun-Hwan Jeong
@hjoshi-nyscf one of easy workaround is going to be rename the guide name as "genesymbol_guideRNA". Can you try?
Hyun-Hwan Jeong
@hjoshi-nyscf have you solved the problem?
Hi, I am trying CB2 analysis in R to analyze my CRISPR data. The package is installed properly (I guess) and example data runs fine. When I am trying my own data, I can load the files correctly. but I am having trouble running the next steps.
Error: cb2_count <- run_sgrna_quant(FASTA, df_design) Error in data.frame(sgRNA = quant_ret$sgRNA, sequence = quant_ret$sequence) : arguments imply differing number of rows: 201322, 202586
Commands (successful)
I am using Rstudio: 2022.12.0+353 R 4.2.2
If you can point me to right direction of resolving this, that would be highly appreciated. HJ