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Commits on Nov 27, 2024

• less strict grad norm clipping

  ruochiz

  committed
  abc6d62

Commits on Nov 26, 2024

• fix bug regarding overwrite in tools, replace MEME tomtom with tangermeme

  ruochiz

  committed
  f7ae125

Commits on Nov 25, 2024

• fix bug regarding overwrite in tools, replace MEME tomtom with tangermeme

  ruochiz

  committed
  7edd525

Commits on Nov 11, 2024

• update documentation

  ruochiz

  committed
  a0910f0

Commits on Nov 7, 2024

• delete old tutorial

  ruochiz

  committed
  8cdf0a7

• delete old tutorial

  ruochiz

  committed
  eb88fca

• add readme

  ruochiz

  committed
  ba30540

• add readme

  ruochiz

  committed
  19d3d4e

• add readme

  ruochiz

  committed
  a42ebde

Commits on Nov 4, 2024

• bug fix

  ruochiz

  committed
  a485e04

Commits on Oct 27, 2024

• now include the path to the fragments when data is imported (useful for multi-fragment file object)

  ruochiz

  committed
  450141f

Commits on Oct 18, 2024

• now include the path to the fragments when data is imported (useful for multi-fragment file object)

  ruochiz

  committed
  c50efd0

• update shift_detection of fragments start with #

  ruochiz

  committed
  4173849

Commits on Oct 2, 2024

• update pyproject.toml

  ruochiz

  committed
  d64dcb6

Commits on Sep 29, 2024

• add more helper functions / fixed lora B issue

  ruochiz

  committed
  77e1628

Commits on Aug 13, 2024

• resolve some warnings from the latest pytorch / chromvar_bug (reported by Conrad) /

  ruochiz

  committed
  f51f55d

Commits on Aug 9, 2024

• clean up & add finemo & modisco helpers

  ruochiz

  committed
  90456c4

Commits on Aug 1, 2024

• clean up scripts and update API. Fixed bugs for multiple fragments

  ruochiz

  committed
  2f28e92

Commits on Jul 26, 2024

• Merge remote-tracking branch 'origin/main'

  ruochiz

  committed
  08373a9

• remove unused files

  ruochiz

  committed
  6865d12

• Delete bpnetfootprint directory

  ruochiz

  authored
  2487467

• code clean up & reformat. More documentation (v2)

  ruochiz

  committed
  50f9eb1

Commits on Jul 11, 2024

• code clean up & reformat. More documentation

  ruochiz

  committed
  f166565

Commits on Jun 21, 2024

• chromvar-gpu_save memory

  ruochiz

  committed
  745108e

Commits on Jun 19, 2024

• chromvar update (minimize GPU memory usage)

  ruochiz

  committed
  8663235

Commits on Apr 26, 2024

• Create Footprint_TFBS_model_py_conv2.pt

  Show description for 6ed4d8f
  ruochiz

  committed
  6ed4d8f

• Merge remote-tracking branch 'origin/main'

  ruochiz

  committed
  def3b54

• finetune TFBS

  ruochiz

  committed
  e4143fa

Commits on Apr 25, 2024

• Merge pull request #3 from lhqing/main

  Show description for 7d141ad
  lhqing

  authored
  7d141ad

• Merge branch 'ruochiz:main' into main

  lhqing

  authored
  7a6bfe4

• fall back to float16 when bfloat16 not supported.

  Show description for 697015c
  lhqing

  committed
  697015c

Commits on Apr 24, 2024

• add model ckpts

  ruochiz

  committed
  801bc28

• add seq attr generation and fintune TFBS

  ruochiz

  committed
  dc9e465

Commits on Apr 23, 2024

• add create bias_bw

  ruochiz

  committed
  44c1e83

Commits on Apr 7, 2024

• add kmer scan for chromvar-kmer

  ruochiz

  committed
  da4196a

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