Nextomics/NextPolish

Issues

• Will polishing alter the phased genome information? Do you have any suggestions?

  #141 opened a month ago by YouxinZhao
  0

• Is there any option for unpolished Ns stay as Ns?

  #140 opened 2 months ago by hyunjokoo
  1

• The process of polishing causes a significant decrease in genome size.

  #130 opened 9 months ago by xujialupaoli
  11

• polish for scaffod.fa(contain Ns)

  #139 opened 3 months ago by DayTimeMouse
  0

• After the gap filling for scaffolds, using NextPolish.

  #136 opened 4 months ago by DayTimeMouse
  2

• NextPolish for metagenome?

  #138 opened 3 months ago by 123chenshixin
  1

• NextPolish fails with Short and Long Reads

  #137 opened 4 months ago by steinbrl
  1

• After I run nextPolish run.cfg, the NextPolish vanished and generate a copy

  #135 opened 4 months ago by SoSongzhi
  2

• How does NextPolish handle short-reads mapping to multiple parts of the genome?

  #133 opened 5 months ago by RenscoHogers
  1

• The telemore sequences were removed after Nextpolish

  #134 opened 5 months ago by YouxinZhao
  1

• Installation failure with multiple definition of 'rle_auxtab'

  #118 opened a year ago by tatsu1207
  3

• db_split failed:

  #119 opened a year ago by YDD99
  4

• An error message was encountered while running 00.lgs_polish/04.polish.ref.sh.work/polish_genome01

  #132 opened 8 months ago by jiuyaojiaonini
  0

• During the execution of samtools index, I encountered an error: "invalid option -- '@'"

  #131 opened 8 months ago by jiuyaojiaonini
  4

• problem with NextPolish-CentOS6.9.tgz

  #129 opened 9 months ago by zhengyanstu
  0

• polish_genome failed

  #128 opened 9 months ago by liuyca1
  1

• zlib.h not found error

  #127 opened 10 months ago by BRNiu
  1

• [main_samview] fail to read the header from "-"

  #126 opened a year ago by kishor2019
  1

• run fails with long read only in conda env

  #124 opened a year ago by splaisan
  5

• SLURM out of memory and time...

  #125 opened a year ago by VendelboNM
  1

• slurmstepd: error: JOB CANCELLED DUE TO TIME LIMIT

  #122 opened a year ago by VendelboNM
  1

• make[2]: *** [Makefile:30: bwa] Error 1 错误

  #121 opened a year ago by smoothyly
  1

• How does NextPolish polish an assembly with long reads?

  #120 opened a year ago by shelkmike
  1

• Test run failed at map_genome: "[gzclose] buffer error"

  #117 opened a year ago by jmpolinski
  3

• Ignore the secondary alignment

  #116 opened a year ago by lilinzhou
  2

• run nextplolish2.py sleep

  #115 opened a year ago by wang-zewen
  8

• Empty bin directory after installation?

  #112 opened 2 years ago by JolandadeB
  2

• nextpolish2.py never stop

  #108 opened 2 years ago by yangfangyuan0102
  6

• User defined alignment pipeline for short- and long-reads

  #113 opened a year ago by RenscoHogers
  2

• [question] combine with medaka or not?

  #114 opened 2 years ago by JWDebler
  3

• repeat regions

  #111 opened 2 years ago by cfz1998
  5

• error of generate_lqseqs_from_cluster

  #110 opened 2 years ago by fangdm
  3

• Adding Hisat2 instead of BWA

  #109 opened 2 years ago by arslan9732
  1

• MissAssembly Correction using NextPolish (Need Suggestions)

  #107 opened 2 years ago by DrNavi
  1

• How to use Nextpolish on NextDenovo draft assembly

  #105 opened 2 years ago by DrNavi
  2

• Need information related to example given in NextPolish Software under the folder test_data

  #106 opened 2 years ago by DrNavi
  4

• Using Illumina Hi-C and Chicago data?

  #104 opened 2 years ago by 000generic
  4

• NextPolish slurmstepd: error: JOB CANCELLED DUE TO TIME LIMIT

  #103 opened 2 years ago by martinmau1
  6

• Polish with raw or corrected ONT reads?

  #102 opened 2 years ago by tbrown91
  1

• how to deal with "N"

  #101 opened 2 years ago by LINGLIU18
  1

• Reduction in genome size after polishing

  #100 opened 2 years ago by Shenu-Hudson
  3

• Why there is no stats about changes when polished with nextpolish1.py or nextpolish2.py

  #99 opened 2 years ago by MongXR
  1

• gap filling effects?

  #98 opened 2 years ago by EugeneKim76
  2

• ImportError

  #97 opened 2 years ago by mergi-2674
  4

• NextPolish license and distribution of source code

  #96 opened 3 years ago by seb45tian
  1

• Polish only INDELs or only SNPs, and polishing thresholds

  #95 opened 3 years ago by mmontonerin
  1

• db_split errors

  #93 opened 3 years ago by k-williamson
  1

• No seq_split in new download

  #91 opened 3 years ago by Amarea1
  5

• How NextPolish v1.4 treat gap in genome ?

  #94 opened 3 years ago by Johnsonzcode
  1

• slurm_submit_batch_job error

  #92 opened 3 years ago by scylaz
  1