Quanyu Chen
Some others have also inquired about this issue, so I decide to add one option instead of iterating through all headers. I now reopen this issue until it would be...
Now GCI adds one option `--chrs` to specify chromosomes (in commit `7afb709`)
I will close this issue due to long time of inactivity.
Had you solved this problem?
Actually, this problem was caused mainly due to memory usage which was metioned in the `To do` section of README. And the solution is always increasing your memory allocation. I'm...
I will close this issue due to long time of inactivity.
Curated contigs number is computed by removing curated gaps on the contig so in few cases, the quality of the assembly is so poor, for example, that the contig might...
I will close this issue due to long time of inactivity.
@Kuanhao-Chao It seems the problem was about the `ref_id_2_m_id_trans_dict, m_id_2_ref_id_trans_dict = lifton_utils.miniprot_id_mapping(m_feature_db)` instead of `miniprot`. I detailedly read your script and everything was right until `miniprot_id_mapping` (actually this step was...
yeah of course. All you need is to map your raw sequence reads to the assembly. https://github.com/yeeus/GCI/blob/665220c0a21e8a7e74496615cdd5ed21dccb5c23/README.md?plain=1#L118