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Issues: malonge/RagTag

Troubleshooting inaccurate scaffolds
#48 by malonge was closed Mar 1, 2021
Closed
Providing a precomputed PAF file for scaffolding
#86 by mrvollger was closed Nov 2, 2021
Closed 2
Why not use Nucmer 4?
#93 by Yutang-ETH was closed Dec 31, 2021
Closed 8
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64 Open 110 Closed
64 Open 110 Closed
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Issues list

Using RagTag to close the gaps in a chromosome or reference genome using long-read data
#179 opened Apr 8, 2024 by gforg34
Ragtag Merge IndexError for -f AGP file
#177 opened Feb 7, 2024 by nickgladman
patch output genome is identical to input target genome
#175 opened Jan 11, 2024 by wackerk
pysam error
#173 opened Dec 29, 2023 by mabh5
Scaffold longer than reference genome due to NNNNs
#172 opened Nov 20, 2023 by vappiah
3
Can't use multiple threads via -t
#171 opened Nov 17, 2023 by ChungLamYu
3
the result of ragtag.merge.fasta shows no improvement.
#169 opened Sep 6, 2023 by zhangkaihui1
ragtag scaffold without concatenation
#168 opened Sep 4, 2023 by taprs
From delta file to agp and to fasta file of scaffolded assembly?
#167 opened Aug 27, 2023 by hrpelg
updategff issues
#166 opened Jul 31, 2023 by El-Castor
Stop without error message on "Reading whole genome alignments"
#165 opened Jun 6, 2023 by Wzuoqi
Unable to fill gap with ragtag scaffold and patch
#164 opened May 31, 2023 by yipukangda
correct use by the species.
#163 opened May 29, 2023 by danielpinilla1
1
Running RagTag on bacterial short-read assemblies
#161 opened Apr 24, 2023 by ne1al
Large >270Mb contigs vs >14Gb reference
#160 opened Apr 13, 2023 by Ural-Yunusbaev
Question about installation
#159 opened Apr 12, 2023 by zhousun21
1
Ragtag.py merge RuntimeError: only complete components can be added to the graph error
#156 opened Mar 10, 2023 by benyoung93
5
RagTag patch bug
#155 opened Mar 2, 2023 by r-poloni
2
Patch error: "Tuple Index out of Range"
#152 opened Feb 6, 2023 by schmigle
1
RagTag name coming up
#149 opened Jan 17, 2023 by rmormando
Some contigs are not scaffolded
#148 opened Jan 11, 2023 by rknx
Error message when running ragtag_scaffold.py
#146 opened Dec 24, 2022 by Surbhigrewal
about paf2delta
#144 opened Dec 19, 2022 by 1085268616
1
Can RagTag use for improve assembled contigs from macrogenomes or macrotrasncriptome
#143 opened Dec 4, 2022 by NailouZhang
a bytes-like object is required, not 'dict'
#141 opened Nov 23, 2022 by mabh5
6
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