chuiyin

Hi Fengchao and Guo Ci, Thanks for the prompt reply. I will try to shorten the folder/file names, hoping it solve the issue. Please let me know if there is...

Hi Miguel, Sorry for the late reply. It took me some time thinking how to properly define a new index that fits your needs. Based on your description, I think...

Hi Jongmin, Can you please check if there is a column, Purity, in your PSM.tsv file? Thanks. Huiyin > dnwhdals ***@***.***> 於 2021年9月26日 下午2:04 寫道： > >  > Describe...

Hi Miguel Regarding the empty TMT reports, the issue is caused by the customized protein header in the fasta file. I assume the header format is: >proteinID gene-name (e.g., >C000010...

@ Alexey, sure. I can work on it. @ Miguel, the current version of TMT-Integrator expects gene names, but it retrieves the information from the psm tables, not from the...

Hi Todd, Thanks very much for sharing. Is it possible for you to share the PSM tables with us (one generated using FragPipe v17 and another generated using FragPipe v18)...

@danielgeiszler Yes, the purity column is needed. I thought the purity is calculated when labelquant is performed. Huiyin danielgeiszler ***@***.***> 於 2022年6月13日 週一 下午12:18寫道： > @huiyinc Will TMT-I expect the...

@danielgeiszler If so, FreeQuant is needed for TMT-I to have the purity column in PSM tables. Are you running FreeQuant alone using the command line? Huiyin danielgeiszler ***@***.***> 於 2022年6月13日...

Hi Todd, Can you please send me the psm tables and fasta files? I want to check what makes the difference. Thanks. Huiyin enonimos ***@***.***> 於 2022年6月14日 週二 上午4:19寫道： >...

Hi Todd, I notice that the two PSM tables are generated using FragPipe v18, psm_WT_2M_01_v18_MS1_Int.tsv and psm_WT_2M_01_v18_MS2_Int.tsv. Can you please tell me how the two tables are generated using FragPipe?...