Commits

Branch selector

 main

User selector

All users

Datepicker

All time

Commit History

Commits on Dec 4, 2023

• Merge pull request #32 from jondeaton/dev

  Show description for d553021
  exnx

  authored
  d553021

  Copy full SHA for d553021

• Update hg38 data download to use curl instead of gsutil.

  jondeaton

  committed
  eec435e

  Copy full SHA for eec435e

Commits on Nov 25, 2023

• update hg38 w/ new tokenizer usage

  exnx

  committed
  bbf903d

  Copy full SHA for bbf903d

Commits on Nov 17, 2023

• update readme with pointer to the inference code to get logits from pretrained model

  exnx

  committed
  cc6ed8d

  Copy full SHA for cc6ed8d

Commits on Nov 15, 2023

• added git-lfs in dockerfile

  exnx

  committed
  bccd7d1

  Copy full SHA for bccd7d1

Commits on Oct 31, 2023

• update readme with change log, masked token averaging, and tips for pretraining

  exnx

  committed
  eed1f4b

  Copy full SHA for eed1f4b

• update configs with correct name for short_filter_order

  exnx

  committed
  363939a

  Copy full SHA for 363939a

• update nuc trans dataset with mask multiclass task, and config

  exnx

  committed
  bba7c81

  Copy full SHA for bba7c81

• update genomic benchmark configs w/ masked multiclass task option

  exnx

  committed
  9d32bea

  Copy full SHA for 9d32bea

• genomic benchmark dataset update, create masks

  exnx

  committed
  aa55b28

  Copy full SHA for aa55b28

• add masking option in nuc trans and genomic bench data loaders

  exnx

  committed
  41decb2

  Copy full SHA for 41decb2

• modify decoder, add option to pool over masked tokens only

  exnx

  committed
  9aeacc8

  Copy full SHA for 9aeacc8

• add MaskedMultiClass task w/ config

  exnx

  committed
  0547de5

  Copy full SHA for 0547de5

• modify tokenizer, special tokens only adds eos, not bos, now

  exnx

  committed
  88d4060

  Copy full SHA for 88d4060

Commits on Oct 18, 2023

• freeze dependency version for transformers==4.26.1 for tokenizer

  exnx

  committed
  8f8997d

  Copy full SHA for 8f8997d

Commits on Oct 17, 2023

• new Docker container to reproduce Nucleotide Transf datasets results, and bidirectional HyenaDNA info

  exnx

  committed
  99fa94c

  Copy full SHA for 99fa94c

• added experimental bidirectional hyena implementation (without MLM)

  exnx

  committed
  b5e5556

  Copy full SHA for b5e5556

• Merge pull request #10 from cbirchsy/genomic_bench_speedup

  Show description for 6b3e88e
  exnx

  authored
  6b3e88e

  Copy full SHA for 6b3e88e

Commits on Sep 19, 2023

• Merge pull request #13 from awaelchli/bugfix/device

  Show description for db7cc5f
  exnx

  authored
  db7cc5f

  Copy full SHA for db7cc5f

Commits on Sep 1, 2023

• update Docker image w/ git-lfs dependency

  exnx

  committed
  4216b46

  Copy full SHA for 4216b46

Commits on Aug 17, 2023

• fix moving torchmetrics to cuda 0

  awaelchli

  committed
  154a0bb

  Copy full SHA for 154a0bb

Commits on Aug 14, 2023

• update the docker file

  exnx

  committed
  f6ea781

  Copy full SHA for f6ea781

Commits on Aug 13, 2023

• Merge pull request #11 from HazyResearch/loaders

  Show description for ded8dda
  exnx

  authored
  ded8dda

  Copy full SHA for ded8dda

• add Dockerfile for dependencies

  exnx

  committed
  acf89e6

  Copy full SHA for acf89e6

• update NT metrics default, add weights from Huggingface for NT datasets

  exnx

  committed
  1c22069

  Copy full SHA for 1c22069

Commits on Aug 11, 2023

• update default config settings species, nuc trans

  exnx

  committed
  2cd788b

  Copy full SHA for 2cd788b

• change default config setting on nuc trans, load backbone

  exnx

  committed
  7a65a1e

  Copy full SHA for 7a65a1e

• correct nuc trans val/test dataloader, requires eval shuffle for correct mcc calc

  exnx

  committed
  0a3d1c9

  Copy full SHA for 0a3d1c9

• Merge branch 'loaders' of https://github.com/HazyResearch/hyena-dna into loaders

  exnx

  committed
  1b83bba

  Copy full SHA for 1b83bba

• add replace N token and add pad token flags in hg38 pretraining

  exnx

  committed
  e152efa

  Copy full SHA for e152efa

• add replace N token and add pad token flags in hg38 pretraining

  exnx

  committed
  a465125

  Copy full SHA for a465125

• genomic benchmarks dataloader speedup

  cbirchsy

  committed
  85ae844

  Copy full SHA for 85ae844

Commits on Jul 18, 2023

• update flash-attn install cmds

  exnx

  committed
  7016972

  Copy full SHA for 7016972

• Merge pull request #4 from eltociear/patch-1

  Show description for 9c0a86d
  exnx

  authored
  9c0a86d

  Copy full SHA for 9c0a86d

• Merge pull request #6 from Miking98/readme

  Show description for 04c64e5
  exnx

  authored
  04c64e5

  Copy full SHA for 04c64e5

Pagination

Previous

Next