Hi, I think MEGAnE is a very good software that meets the needs of my project, however, I encountered some problems when testing it:
1, For non-human reference genome, we have create a custom reference datasets based on your wiki sections. But, I don't know if the TE in ME_with_pA.txt will be removed by subsequent analysis, or if it will only analyze the TE present in this file？
2, Besides, At least how many "A" bases are needed at the end of a sequence to define a polyA_TE, and whether consecutive "T" bases at the end of a sequence are also acceptable？
3, Since many files are generated under the result directory, can you provide explanatory information these files？
This is the log file I tested. Is it running successfully? I'm confused about that last sentence:
"All analysis finished! Thank you for using MEGAnE! We failed to call and genotype pMEIs. Please check again whether the input BAM/CRAM contains abundant pMEI."
Hi, I think MEGAnE is a very good software that meets the needs of my project, however, I encountered some problems when testing it:
1, For non-human reference genome, we have create a custom reference datasets based on your wiki sections. But, I don't know if the TE in ME_with_pA.txt will be removed by subsequent analysis, or if it will only analyze the TE present in this file？
2, Besides, At least how many "A" bases are needed at the end of a sequence to define a polyA_TE, and whether consecutive "T" bases at the end of a sequence are also acceptable？
3, Since many files are generated under the result directory, can you provide explanatory information these files？
for_debug.log