steineggerlab/foldcomp

Issues

• Encode only backbone atoms

  #59 opened 2 months ago by alex-hh
  2

• Explanation of side chain discretisation

  #61 opened 2 months ago by alex-hh
  0

• Are these not all coords?

  #57 opened 5 months ago by patrickbryant1
  1

• Exclude Amino Acid letter During Compression

  #58 opened 4 months ago by mahdip72
  1

• Error downloading proteome subsets

  #60 opened 2 months ago by alex-hh
  2

• using foldcomp database with a foldseek search

  #38 opened a year ago by emzodls
  1

• Can foldseek database be built from fcz files?

  #15 opened 2 years ago by yakomaxa
  5

• ESMFold database header issues

  #51 opened 9 months ago by valentynbez
  1

• Errors in `highquality_clust30`

  #56 opened 6 months ago by valentynbez
  3

• extracting PDBs

  #55 opened 7 months ago by Yogesh1-11
  0

• Multi-chain pdb

  #50 opened 9 months ago by Marc-commits
  1

• `highquality_cluster30` - fragmented sequences split on undetermined aminoacid

  #53 opened 9 months ago by valentynbez
  0

• `foldcomp.open` - return empty structure string if structure is not found in database

  #54 opened 9 months ago by valentynbez
  0

• Advice for installation with pip

  #49 opened 9 months ago by miangoar
  3

• Heads up that pip install from pypi doesn't work with python 3.12

  #52 opened 9 months ago by chasemc
  0

• Extraction of `FASTA` adds unnecessary `.pdb` extension if absent, which leads to inconsistensies

  #45 opened a year ago by valentynbez
  2

• Python API order of torsion angle output

  #48 opened 9 months ago by mheinzinger
  4

• foldcomp compress breaks input pdb file into multiple output files

  #47 opened a year ago by vagkaratzas
  2

• Database extraction failed

  #42 opened a year ago by valentynbez
  2

• Errors with compressing PDB/CIF

  #44 opened a year ago by yunwilliamyu
  2

• --version

  #43 opened a year ago by vagkaratzas
  2

• Merging databases

  #41 opened a year ago by andymlau
  2

• Dealing with nested subdirectories

  #40 opened a year ago by jomimc
  2

• Subsetting databases

  #39 opened a year ago by patrickbryant1
  7

• Retrieving structures from `highquality_clust30`

  #37 opened a year ago by PawelSzczerbiak
  6

• Multithreaded database query

  #36 opened 2 years ago by valentynbez
  0

• Error compresing `PDB`

  #35 opened 2 years ago by valentynbez
  2

• Extracting sequences from Foldcomp database

  #34 opened 2 years ago by valentynbez
  7

• decompress a subset of entries

  #27 opened 2 years ago by kad-ecoli
  4

• Segfault compressing PDB structures

  #33 opened 2 years ago by zdk123
  3

• Alignment scores

  #32 opened 2 years ago by HrishiDhondge
  1

• [Feature Request]: JS Decompression

  #31 opened 2 years ago by a-r-j
  1

• bug in bfactor field of OXT atom

  #30 opened 2 years ago by kad-ecoli
  1

• Will Foldcomp database for ESM atlas be released?

  #17 opened 2 years ago by yakomaxa
  8

• [Bug] Memory leakage issue in foldcomp.get_data

  #29 opened 2 years ago by Oxer11
  2

• subset does not work

  #28 opened 2 years ago by kad-ecoli
  1

• [Bug] Garbage collection when opening a database multiple times

  #25 opened 2 years ago by Oxer11
  2

• AlphaFold DB proteome subset

  #24 opened 2 years ago by kad-ecoli
  3

• [Question] Why use NeRF over faster alternatives

  #26 opened 2 years ago by a-r-j
  1

• How to build custom database?

  #14 opened 2 years ago by yakomaxa
  11

• Foldcomp database for AF2 representative structures

  #23 opened 2 years ago by a-r-j
  2

• compression accuracy

  #18 opened 2 years ago by YoelShoshan
  1

• Get not compressed data and reconstruction

  #11 opened 2 years ago by hhaootian
  4

• Suggestion: Multi protein files

  #5 opened 2 years ago by hmms117
  4