oushujun/LTR_retriever

Issues

• LAI calculation caused 'Out of Memory'

  #190 opened a month ago by MegadogDede
  0

• LTR age Kimura distance

  #184 opened 5 months ago by fmaumusINRA
  2

• Discrepancy Between Expected and Actual Results in solo_intact_ratio.pl

  #189 opened a month ago by LQ16
  0

• cleanup.pl Bug?

  #162 opened 2 months ago by asgray
  3

• LTR retriever is not compatible with RepeatModeler2 since v2.9.8?

  #169 opened 2 months ago by BitaoQiu
  6

• Kimura2Paramter to ks value/Time

  #170 opened 2 months ago by manoharbisht1998
  4

• The difference in LAI evaluated using the two methods is significant.

  #179 opened 2 months ago by dongaoqian
  3

• TSDs are not identical

  #174 opened 2 months ago by ala98412
  3

• substr outside of string at /data/00/user/user101/software/LTR_retriever/LTR_retriever/bin/call_seq_by_list.pl line 129

  #178 opened 2 months ago by aaannaw
  1

• ID Conversion

  #175 opened 9 months ago by rmhubley
  2

• The number of LTRS is very strange.

  #187 opened 4 months ago by zhiyongli1995
  4

• Can I calculate LAI for each chromosome and average it?

  #185 opened 2 months ago by ltachi11
  1

• LTR insertion time

  #182 opened 2 months ago by hlin1221
  1

• Specify the output directory

  #180 opened 2 months ago by Lucien-Piat
  1

• Dependency checker looking in wrong directory for makeblastdb

  #166 opened 2 months ago by benfulton
  1

• same bug before about LTR.identifier.pl

  #163 opened 2 months ago by Z1997B
  3

• remove / alter 13 character heading limit

  #186 opened 2 months ago by mattheatley
  1

• Heterologous Polyploid Genome LAI Calculation Method

  #188 opened 2 months ago by jwli-code
  1

• LTR_retriever for ERROR: No candidate is found in the file(s) you specified.

  #181 opened 5 months ago by Jasminefyh
  8

• No candidate is found in the file(s) you specified v3.0.1

  #183 opened 5 months ago by imu93
  1

• CP: cannot stat 'DM8.fa.retriever.scn.adj':No such file or directory

  #177 opened 8 months ago by zxd-alt
  3

• Calculated LAI is too large

  #171 opened a year ago by yaoxkkkkk
  6

• LTR_retriever produce different result in different data combine ways

  #172 opened 8 months ago by LQ16
  1

• Is a writable `$genome` necessary?

  #176 opened 8 months ago by GallVp
  3

• Assessing Chrysanthemum lavandulifolium genome assembly

  #167 opened a year ago by zhangdeng1992
  3

• low LAI when using ltrharvest result as input

  #173 opened 9 months ago by shiyi-pan
  1

• Are there any changes in Module 1 between versions 2.9.0 and 2.9.9?

  #161 opened a year ago by ala98412
  3

• Exploring the transposition profile of specific LTRs

  #168 opened a year ago by shuren7
  2

• The LTR_retriever fails to identify LTRs with tandem repeats, such as Dasheng.

  #165 opened a year ago by CSU-KangHu
  3

• A reviewer's comment related to the setting of mutaion rate

  #164 opened a year ago by zhdang
  2

• Invalid value for shared scalar

  #153 opened 2 years ago by SamCT
  10

• awk: cannot open N02.fa.retriever.scn.extend.fa.rexdb.cls.tsv

  #155 opened a year ago by renmiaozhen
  5

• LOC list New_genome.nextpolish.exceptChl.FINAL.fa.retriever.scn.full is empty

  #157 opened 2 years ago by cutykaka
  3

• ERROR: No candidate is found in the file(s) you specified.

  #156 opened a year ago by Janz-Sicau
  10

• fa.mod.nmtf.pass.list is empty

  #159 opened a year ago by 44314474
  2

• LTR_retriever failed to generate a file - data passing in a multithreaded run

  #160 opened a year ago by cyycyj
  2

• an error in Calculate LAI from EDTA

  #158 opened 2 years ago by chaimol
  2

• awk: fatal: cannot open file `genome.fa.mod.retriever.scn.extend.fa.rexdb.cls.tsv' for reading (No such file or directory)

  #154 opened 2 years ago by OSfish123
  1

• I can´t install LTR_retriever via conda

  #152 opened 2 years ago by jplondono14
  4

• RE: Masking LTR

  #144 opened 2 years ago by Malabady
  2

• ask for help? panLTR

  #147 opened 2 years ago by fafuyyk
  1

• LAI is not applicable on the current genome assembly

  #150 opened 2 years ago by yilunhuangyue
  3

• conda install errors

  #151 opened 2 years ago by xiekunwhy
  1

• No tbl file issue

  #149 opened 2 years ago by wrengs
  5

• How to discover "sequencing gaps" in genome assemblies.

  #146 opened 2 years ago by Wenwen012345
  3

• A question about LAI in autopolyploid

  #145 opened 2 years ago by kedduck
  2

• Running Ltr_retriever...Died at /app/RepeatModeler-2.0.4/LTRPipeline line 693.

  #148 opened 2 years ago by ShirelyI
  2

• LTR_retriever warning

  #142 opened 2 years ago by fafuyyk
  1

• Total length annotated by RepeatMasker is longer than LTR_retriever

  #143 opened 2 years ago by th2ch-g
  3

• Are LTRs (insertion time of 0) the likely cause of somatic variation?

  #141 opened 2 years ago by Wenwen012345
  2