aaranyue quarTeT issues

aaranyue / quarTeT

A telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification

http://atcgn.com:8080/quarTeT/home.html

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issues

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[suggestion] Change minimap2 to Unimap and use asm5 for same species but asm20 for related species

#43 Isoris opened 4 days ago
0
Subject: Using QuarTeT GapFiller with Unplaced Scaffolds and Flanks from a related species.

#42 Isoris opened 1 month ago
5
Can AssemblyMapper keep contigs which are not mapped to pseudomolecules, like ragtag does?

#41 yaoxkkkkk closed 1 month ago
2
[ERROR] failed to open file 'quarTeT.flank_map_ILhap1hap2.fa.paf'

#40 lijphd168866 opened 2 months ago
4
Would it be possible to get positions of filled gaps ?

#39 Isoris opened 2 months ago
3
How to fill genome gaps using quarTeT software for ONT data

#38 Apl-cc opened 2 months ago
1
Input genome does not have valid gap

#37 yghyghyghyghygh closed 5 months ago
2
使用GapFiller模块

#36 yghyghyghyghygh closed 6 months ago
2
Advice for "-l" parameter setting

#35 V-JJ opened 6 months ago
2
Centrominer candidate file fields meaning

#34 V-JJ opened 6 months ago
0
The difference between join and fill mode?

#33 Marison-1 closed 6 months ago
1
Gap filling problem,gap seems still exist after the program finished?

#32 Marison-1 closed 8 months ago
0
[Usage and inputs for Quartet] What assembly should be used in input?

#31 Isoris closed 7 months ago
6
Inquiries about TeloExplorer and CentroMiner

#30 OZTaekOppa closed 6 months ago
4
What sequence should I use to visualise the centromere

#29 shehongbing closed 7 months ago
1
Potential Centrominer improvements using proximity to telomere scoring, and gene annotation

#28 colindaven closed 7 months ago
2
Assessing the genome after filling the gaps showed that qv values are reduced

#27 doubleHwithT closed 7 months ago
1
which is the output result of TeloExplorer.

#26 yangyyhh closed 10 months ago
0
Confused about CloserScore

#25 Bank-tidy closed 7 months ago
2
关于quarTeT telomere的结果文件 telo.label.txt

#24 Threeman8 closed 11 months ago
7
[Error] No gap can be closed

#23 Bank-tidy closed 7 months ago
4
added maximum TR length parameter for trf

#22 atotickov closed 1 year ago
4
How to estimate the CloserScore!

#21 bioinformaticspcj closed 7 months ago
1
how to figure the output of centrominer

#20 XiaoTW123 closed 7 months ago
2
endless slurm work problem

#19 cyycyj closed 7 months ago
14
着丝粒可视化bug

#18 btrainee closed 7 months ago
3
How AssemblyMapper ensure the genome is complete.

#17 xiekunwhy closed 7 months ago
1
png输入问题

#16 zongzone closed 7 months ago
2
"Np.contig_map_ref.gp", line 40733: unrecognized option - see 'help set'.

#15 wangjie07070910 closed 6 months ago
3
在网站使用发生如下错误，不知如何修改

#14 jiangshuyang123 closed 7 months ago
4
Could I generate haplotype-resolved assembly using AssemblyMapper?

#13 hui-liu closed 1 year ago
1
what do the parameters "--fillonly" and "--joinonly" mean?

#12 hui-liu closed 1 year ago
1
Three problems for using quartet program

#11 zhenwenliu closed 7 months ago
3
有多个填充数据时GapFiller会选择identity值最高的吗?

#10 XXH123a closed 1 year ago
1
能够提交数据但最终结果是空的

#9 XXH123a closed 1 year ago
6
Flanking sequence contains gap

#8 yangchouxianyu closed 7 months ago
8
question about CentroMiner

#7 Henry-Ding closed 7 months ago
3
usage issues

#6 zhangwenda0518 closed 1 year ago
3
FileNotFoundError: [Errno 2] No such file or directory: 'tmp/sx_tm.txt'

#5 HaoWenhy closed 7 months ago
5
FileNotFoundError: [Errno 2] No such file or directory: 'tmp/sx_tm.txt'

#4 HaoWenhy closed 1 year ago
1
Upload genome files to the website

#3 hushaoqiang closed 7 months ago
16
About references guided assemble

#2 xiekunwhy closed 7 months ago
2
Setting of the Telomere parameters

#1 Wenwen012345 closed 1 year ago
9