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User support and development list for the MAKER genome annotation pipeline. MAKER is a part of the Generic Model Organism Database (GMOD) project.

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Topics (1144)
Replies Last Post Views
clarification on creating a standard build by Valerie Soza
3
by Valerie Soza
Gene loss in subsequent round of maker for fungal genome annotation by Urmi
3
by Urmi
Problems with failed contigs by seoanezonjic
3
by seoanezonjic
scaffolds missing from master_datastore_index.log and all.gff files by Valerie Soza
2
by Valerie Soza
Some transcripts have no AED? by wangzhennan
3
by Carson Holt-2
Using PASA assemblies with MAKER by Federico López
1
by Carson Holt-2
gff3 valiadation with GAG and loss of Name information, start-stop codons by Giroux, Emily (CFIA/...
1
by Carson Holt-2
failed contigs in master_datastore_index.log but no errors in screen output by Valerie Soza
3
by Carson Holt-2
Need Help with maker2jbrowse by Kevin McCormick
1
by Carson Holt-2
MPI selection by admin
5
by Carson Holt-2
questions on master_datastore_index.log file by Qihua Liang
9
by Carson Holt-2
Is it possible to extract the GFF3 file for the raw gene models predicted by est2genome and protein2genome? by Jia-Xing Yue-2
4
by Jia-Xing Yue-2
gene annotation for a better genome by Quanwei Zhang
7
by Carson Holt-2
map the transcripts back onto the genome using "est2genome=1" by Quanwei Zhang
0
by Quanwei Zhang
maker-3.01.02-beta run error by Chuanlin Yin
1
by Carson Holt-2
maker pipeline 2nd round updating augustus by Giroux, Emily (CFIA/...
1
by Carson Holt-2
Maker run problems - BLAST makeblastdb failed by Marni Tausen
2
by Carson Holt-2
Adding NR functional annotation by Patrick Tran Van-2
0
by Patrick Tran Van-2
name of gene model by Quanwei Zhang
1
by Carson Holt-2
GFF3 to .tbl by Muhammad Arslan
1
by Carson Holt-2
Names/IDs from pred_gff are included in final gff by Ole Kristian Tørrese...
2
by Ole Kristian Tørrese...
how the maker2 pipeline deal with a Ns sequence by Quanwei Zhang
1
by Carson Holt-2
Problem of maker？ by 陈军辉(Junhui Chen)
1
by Carson Holt-2
Error from Pseudo gene identification scripts by Quanwei Zhang
8
by Quanwei Zhang
[Maker] Gene density threshold? by Jeanne Web
3
by Jeanne Web
Difference between AED=1 and keep_preds=1 by Patrick Tran Van-2
3
by Carson Holt-2
Pseudogene identification by Quanwei Zhang
3
by Quanwei Zhang
Changing the genetic code table in MAKER by Yu-Hsuan Cheng
1
by Carson Holt-2
custom "ab initio" predictions with automatic hint-based predictions by Bob Zimmermann
3
by Carson Holt-2
About loss of Histone H2A, H2B, H4 by Quanwei Zhang
4
by Quanwei Zhang
Need your help on maker pipeline by HAI WANG
1
by Carson Holt-2
Unwarranted error: Skipping the contig because it is too short by lahcen campbell
7
by Carson Holt-2
99.98% of repeatmasker features on plus strand, anyone else seen this? by Matt Simenc
3
by Matt Simenc
Model training with AED=0.7 made all contigs FAILED by Lahcen Campbell-2
1
by Carson Holt-2
Model training with AED=0.7 made all contigs FAILED by lahcen campbell
0
by lahcen campbell
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