Ecosyste.ms: Issues

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GitHub / microsoft/evodiff issues and pull requests

#54 - Increasing sequence similarity to input sequences

Issue - State: open - Opened by diossynvax 18 days ago

#52 - Generate_msa --start-query for custom file

Pull Request - State: open - Opened by rostro36 about 2 months ago - 1 comment

#51 - Biotite v1.0.0 breaks conditional diffusion functions.

Issue - State: closed - Opened by colbyford about 2 months ago - 1 comment

#49 - Using a novel config file in EvoDiff-MSA

Issue - State: closed - Opened by diossynvax about 2 months ago - 2 comments

#48 - Question about generating IDRs from EvoDiff-Seq

Issue - State: open - Opened by zhang-bo-lilly about 2 months ago - 3 comments

#47 - conditional_generation inpaint import error

Issue - State: closed - Opened by ranaabarghout 2 months ago - 2 comments

#46 - Question not Issue

Issue - State: open - Opened by marjanUofT 2 months ago - 2 comments

#45 - Two minor syntax error bugfixes

Pull Request - State: closed - Opened by gooley 3 months ago

#44 - Remove unused mlflow dependency

Pull Request - State: closed - Opened by gooley 3 months ago

#42 - Dependency issues when installing environment packages

Issue - State: closed - Opened by gadmiraal 3 months ago

#41 - Add IDR index data

Pull Request - State: closed - Opened by sarahalamdari 3 months ago - 3 comments

#40 - remove esm dependencies from conditional generation

Pull Request - State: closed - Opened by sarahalamdari 3 months ago

#38 - Error while running inpainting task using EvoDiff-seq

Issue - State: closed - Opened by aksingh135 6 months ago - 1 comment

#37 - Non-canonical amino acid sequence seen

Issue - State: open - Opened by sungyounjoo 6 months ago - 1 comment

#36 - Nothing works

Issue - State: closed - Opened by ChenchaoZhao 7 months ago - 4 comments

#35 - Following basic code doesn't work

Issue - State: closed - Opened by dannyoo 8 months ago - 1 comment

#34 - How to train LRAR

Issue - State: closed - Opened by violet-sto 9 months ago

#33 - Question: ways to improve conditional MSA generation

Issue - State: closed - Opened by yzhang-github-pub 9 months ago - 1 comment

#32 - padding_idx=masking_idx in ByteNetLMTime instantiation arguments

Issue - State: closed - Opened by cmarkak 9 months ago - 1 comment

#31 - msa_oa_ar_maxsub not recognized

Issue - State: open - Opened by jasonkyuyim 11 months ago - 2 comments

#30 - Running the `evodiff/generate.py` script

Issue - State: closed - Opened by Amelie-Schreiber 11 months ago - 1 comment

#29 - the error in generate sequences using esm1b_650M

Issue - State: closed - Opened by Linzy19 12 months ago - 2 comments

#28 - Question on MaxHamming distance

Issue - State: closed - Opened by BSharmi 12 months ago - 1 comment

#27 - Error with IDR inpainting with Evodiff-MSA

Issue - State: closed - Opened by ZhiYeG about 1 year ago - 1 comment

#26 - Fix LRAR model loading

Pull Request - State: closed - Opened by sarahalamdari about 1 year ago

#25 - Error Loading State Dictionary in ByteNetLMTime: Unexpected Keys

Issue - State: closed - Opened by PodevynLoris about 1 year ago - 6 comments

#24 - Fix bug in trrmsa dataset

Pull Request - State: closed - Opened by JonathanDZiegler about 1 year ago

#23 - Indexing bugs in TRRMSADataset

Issue - State: closed - Opened by JonathanDZiegler about 1 year ago

#22 - Allow diffusion to gap character in OADM models?

Issue - State: closed - Opened by elibixby about 1 year ago - 1 comment

#21 - Error Loading Pretrained Model with `--pretrained` Flag

Issue - State: closed - Opened by PodevynLoris about 1 year ago

#20 - A Dockerfile to run EvoDiff locally in a container (with GPU support)

Pull Request - State: closed - Opened by colbyford about 1 year ago - 1 comment

#19 - Using generate_msa()

Issue - State: closed - Opened by mcale6 about 1 year ago - 3 comments

#18 - Question about fine-tuning

Issue - State: closed - Opened by PodevynLoris about 1 year ago - 1 comment

#17 - KeyError: '!' during conditional generation

Issue - State: closed - Opened by cmwilson252 about 1 year ago - 5 comments

#16 - fix minor typos

Pull Request - State: closed - Opened by guillaumehu about 1 year ago

#15 - cleanup train imports

Pull Request - State: closed - Opened by sarahalamdari about 1 year ago

#14 - Inpaint VS Scaffold

Issue - State: closed - Opened by PodevynLoris about 1 year ago - 1 comment

#13 - Add test data to data/

Pull Request - State: closed - Opened by sarahalamdari about 1 year ago

#12 - Missing uniref50_aa_ref_test.csv

Issue - State: closed - Opened by andrew0901 about 1 year ago - 2 comments

#11 - TypeError: forward() missing 1 required positional argument: 'y'

Issue - State: closed - Opened by jsteward2930 about 1 year ago - 2 comments

#10 - Missing data files: lengths_and_offsets.npz, consensus.fasta, and splits.json

Issue - State: closed - Opened by Linzy19 about 1 year ago - 3 comments

#9 - tag device='cuda' not working

Issue - State: closed - Opened by arjunsbalaji about 1 year ago - 4 comments

#8 - no generate directory

Issue - State: closed - Opened by arjunsbalaji about 1 year ago - 1 comment

#7 - Fixed repetition in Datasets section of README

Pull Request - State: closed - Opened by thrkll about 1 year ago

#6 - Add model descriptions

Pull Request - State: closed - Opened by yangkky about 1 year ago

#5 - Notebook

Pull Request - State: closed - Opened by nityathakkar over 1 year ago - 1 comment

#4 - Clean

Pull Request - State: closed - Opened by nityathakkar over 1 year ago

#3 - generate + model_perp pretrained models

Pull Request - State: closed - Opened by nityathakkar over 1 year ago

#2 - Clean

Pull Request - State: closed - Opened by nityathakkar over 1 year ago