uw-ipd/RoseTTAFold2NA

Issues

• Discrepancy in Size of nt Dataset Downloads: Direct Link vs. update_blastdb.pl Command

  #90 opened 10 months ago by ShuZishan
  2

• hardware requirements

  #119 opened 4 months ago by kaw97
  3

• G-quadruplex (G4) DNA

  #123 opened 2 months ago by ZhuLvs
  0

• makeblastdb error

  #122 opened 3 months ago by eliaswip
  1

• Irreproducible conda environment from yml file

  #81 opened a year ago by pottsj21
  1

• How the weight file is generated, and whether the code has been open-sourced

  #121 opened 3 months ago by 124189
  0

• RNA Secondary Structure

  #120 opened 4 months ago by iammarcol
  0

• The example DNA fasta file is missing.

  #82 opened a year ago by BrandonFrenz
  2

• Error: (803.7) [makeblastdb] Blast-def-line-set.E.title

  #98 opened 9 months ago by William-chen777
  3

• Is the training dataset exclusive and is it available？

  #118 opened 4 months ago by 124189
  0

• Antibody structure prediction

  #117 opened 5 months ago by vella12-osu
  1

• Error in Prediction of RNA structure with Protein

  #85 opened a year ago by didEldi
  2

• MSA error when running prediction with short poly-U RNA

  #84 opened a year ago by mvorlander
  2

• Test run_no output model

  #91 opened 10 months ago by hummmmv
  2

• Unaccepted characters after Rfam-database-check

  #116 opened 6 months ago by Tim15-tech
  4

• makeblastdb errors when generating RNA data base

  #88 opened a year ago by vcojocaru
  2

• Protein/RNA prediction taking too long

  #78 opened a year ago by tanmoyp635
  1

• UserWarning: Using torch.cross without specifying the dim arg is deprecated.

  #113 opened 8 months ago by SuhasSrinivasan
  1

• UnboundLocalError: local variable 'is_ignore' referenced before assignment

  #108 opened 8 months ago by SuhasSrinivasan
  3

• make_rna_msa.sh: line 9: [: missing `]'

  #107 opened 8 months ago by SuhasSrinivasan
  2

• run_RF2NA.sh: Logging issues

  #106 opened 8 months ago by SuhasSrinivasan
  2

• Regression: run_RF2NA.sh - R:RNA.fa No such file or directory

  #103 opened 8 months ago by SuhasSrinivasan
  2

• dimaio/new_config: Conda environment needs to be activated

  #112 opened 8 months ago by SuhasSrinivasan
  0

• A SOLUTION for Package Dependency Issues 📦

  #105 opened 9 months ago by SuhasSrinivasan
  2

• Add pytz and torchdata to requirements.txt

  #93 opened 9 months ago by MatthewPace98
  2

• How to solve error : PackagesNotFoundError: The following packages are not available from current channels

  #94 opened 10 months ago by yunsangk
  1

• Cannot load Graphbolt C++ library

  #99 opened 9 months ago by SuhasSrinivasan
  2

• NVTX functions not installed

  #104 opened 9 months ago by SuhasSrinivasan
  2

• Downloading pre-trained weights

  #102 opened 9 months ago by kiernan1
  0

• About whether RoseTTAFold2NA can generate multiple models?

  #101 opened 9 months ago by April-Zhangjq
  0

• Please provide pre-processed files for RNA

  #97 opened 9 months ago by SuhasSrinivasan
  0

• ../input_prep/reprocess_rnac.pl id_mapping.tsv.gz rfam_annotations.tsv.gz # ~8 minutes

  #92 opened 10 months ago by rse-lbl
  3

• reprocess_rnac.pl - Out of memory

  #96 opened 9 months ago by SuhasSrinivasan
  1

• Can RoseTTAFold2NA predict the complex of several protein chains with DNA?

  #95 opened 9 months ago by BelyaevaJuly
  0

• Test run_RF2na.sh for DNA and RNA Error - missing a3m files

  #72 opened a year ago by mackevinbraza
  9

• Cannot find 22:32:35.465 /RF2NA/bfd/bfd_metaclust_clu_complete_id30_c90_final_seq.sorted_opt_cs219.ffdata

  #83 opened a year ago by BrandonFrenz
  2

• where is update_blastdb.pl ?

  #75 opened a year ago by JiayouZhang
  3

• Does RoseTTAFold2NA model the phosphorylated amino acids?

  #89 opened a year ago by Wenhao-Jin
  0

• Can it run with DNA or RNA modification?

  #87 opened a year ago by IvanWoo22
  0

• Run on CPU without cuda/NVIDIA?

  #69 opened a year ago by stianale
  1

• The 3D structures of Cis-BP

  #80 opened a year ago by takahh
  0

• UniClust 30 Database URL Broken

  #79 opened a year ago by ExactMoose
  0

• CUDA error: CUBLAS_STATUS_INVALID_VALUE

  #76 opened a year ago by denizkavi
  1

• Memory alocation error.

  #73 opened a year ago by tanmoyp635
  0

• make_rna_mas.sh error

  #68 opened a year ago by MrGao1997
  5

• example file not include DNA file

  #70 opened a year ago by bioone
  0

• Databases path pointer different than suggested in the README

  #67 opened a year ago by fglaser
  3

• An error when download dataset

  #66 opened a year ago by MrGao1997
  0

• Strange prediction results

  #65 opened a year ago by tryptos
  0

• Data Training Cut-Off Date for Version 0.2

  #64 opened a year ago by i-l-sokolov
  0