MCScanX
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wyp1125
MCScanX: Multiple Collinearity Scan toolkit X version. The most popular synteny analysis tool in the world!
@tanghaibao @wyp1125 Hi Haibao,hi Yupeng, Regards! Sorry to bother, I was wondering how to modify the code to make MCS take more letters as the species ID. Now the software...
Hello, I’d like to ask whether MCScanX is supported on Linux/Mac ARM64 systems ? Any concerns ? Any positive/negative experience ? Thank you!
Hi, I am trying to compare two snake genomes for identifying collinear genes but currently having some issues with MCScanX. Even I have generated the gff and blast files having...
Greetings, I'm trying to make use of MCScanX_h, i've prepared the necessaries files following the manual yet my data neither example data is working. My gff with 5 species gff...
Hi, Fisrt of all, thanks for developing such a nice tool. I'm having an issue when trying to create circle plots for higher number of chromosomes. For the complete set...
Hello @BenjaminSchwessinger @[jannafierst](https://github.com/jannafierst) Recently I have read the literature (https://onlinelibrary.wiley.com/doi/10.1111/jse.12850) and conducted research on LTR- retrotransposon. In this article, the author made the following image using MCscanX. The image seems...
(base) padanas-MBP:downstream_analyses padana$ perl add_ka_and_ks_to_collinearity.pl -i ./data/crst-psr.collinearity -d ./data/crstpsr.cds -o kkkkkk Cannot open cds_file! i am facing this error. can you guide me ? my CDS file header >EVM0023101.1 header...
I have installed MCSCANX but the command blastall is not there even if blast+ is installed on my device, Is there any other alternative for blastall. Also running the normal...
Hi, I am really excited to try out this set of tools, and want to do it through Docker. However, I cannot get the example data to work, I guess...
Hi, I am new to comparative genomics and I am going to ask a very stupid question. I am so sorry for that. I am working on two vertebrates and...
