Genomics config

2i2c-org · Jan 22, 2024 · 134f159 · 134f159
1 parent 8d225de
commit 134f159
Show file tree

Hide file tree

Showing 2 changed files with 11 additions and 14 deletions.
diff --git a/environment.yml b/environment.yml
@@ -0,0 +1,10 @@
+channels:
+  - bioconda
+  - conda-forge
+  - defaults
+dependencies:
+  - fastqc=0.11.9
+  - trimmomatic=0.39
+  - bwa=0.7.17=ha92aebf_3
+  - samtools=1.9=h8ee4bcc_1
+  - bcftools=1.9
diff --git a/requirements.txt b/requirements.txt
@@ -1,14 +1 @@
-jupyterlab==3
-numpy
-matplotlib
-jupyter-book
-jupyterlab-iframe
-jupyterlab-git 
-jupyterlab_myst
-jupyter-server-proxy
-ghp-import
-sphinx-autobuild
-sphinxcontrib-mermaid
-docutils==0.17.1  # see https://jupyterbook.org/en/stable/content/citations.html?highlight=docutils#citations-and-bibliographies
-nox
-gh-scoped-creds
+igv-notebook