Skip to content

Commit

Permalink
Update docs/BIOI611_bulkRNA_SE_ballgown.ipynb
Browse files Browse the repository at this point in the history
  • Loading branch information
xie186 committed Oct 21, 2024
1 parent 05d04f8 commit 0d33cf9
Showing 1 changed file with 36 additions and 25 deletions.
61 changes: 36 additions & 25 deletions docs/BIOI611_bulkRNA_SE_ballgown.ipynb
Original file line number Diff line number Diff line change
Expand Up @@ -4,7 +4,7 @@
"metadata": {
"colab": {
"provenance": [],
"authorship_tag": "ABX9TyPXIrnJoit5Q196WpcTXWDq",
"authorship_tag": "ABX9TyMUVPQf8cFqcL1zKbWiieTn",
"include_colab_link": true
},
"kernelspec": {
Expand Down Expand Up @@ -39,7 +39,7 @@
},
{
"cell_type": "code",
"execution_count": 1,
"execution_count": null,
"metadata": {
"colab": {
"base_uri": "https://localhost:8080/"
Expand Down Expand Up @@ -88,7 +88,7 @@
"id": "Wl80NkF4bguO",
"outputId": "d47dff54-7dd5-43e4-b70e-68daff9082c5"
},
"execution_count": 4,
"execution_count": null,
"outputs": [
{
"output_type": "stream",
Expand All @@ -109,7 +109,10 @@
},
{
"cell_type": "markdown",
"source": [],
"source": [
"> <img src=\"https://github.com/user-attachments/assets/0c96db06-eddd-4a81-8876-c357edaef7c2\" width=5% height=5%>\n",
"Please update you data generated by `tablemaker. Please refer to the section **Running Tablemaker** the link [here](https://www.bioconductor.org/packages/release/bioc/vignettes/ballgown/inst/doc/ballgown.html) for details."
],
"metadata": {
"id": "t5x16Lk3zmnM"
}
Expand All @@ -127,7 +130,7 @@
},
"outputId": "aa2c233c-9164-47c0-df56-251e1215031c"
},
"execution_count": 2,
"execution_count": null,
"outputs": [
{
"output_type": "display_data",
Expand All @@ -145,15 +148,23 @@
}
]
},
{
"cell_type": "markdown",
"source": [],
"metadata": {
"id": "H4zKtbFfewDO"
}
},
{
"cell_type": "code",
"source": [
"\n",
"system(\"tar zxvf bulkRNA_SE_tablemaker.tar.gz\")"
],
"metadata": {
"id": "PetHq55kVMHL"
},
"execution_count": 3,
"execution_count": null,
"outputs": []
},
{
Expand All @@ -170,7 +181,7 @@
"id": "9DrZ1H-QzS8Q",
"outputId": "4ada4f0f-595e-4b27-e1ee-246d61f50843"
},
"execution_count": 7,
"execution_count": null,
"outputs": [
{
"output_type": "display_data",
Expand Down Expand Up @@ -203,7 +214,7 @@
"id": "8kZKnJx9K_fW",
"outputId": "43466515-f6fb-40ea-8f7a-2ea6f49d62c1"
},
"execution_count": 8,
"execution_count": null,
"outputs": [
{
"output_type": "stream",
Expand Down Expand Up @@ -278,7 +289,7 @@
"id": "Nmmo_3JtLIzJ",
"outputId": "c97e995c-0946-4302-b643-b50922c9495a"
},
"execution_count": 9,
"execution_count": null,
"outputs": [
{
"output_type": "display_data",
Expand Down Expand Up @@ -319,7 +330,7 @@
"id": "uNZtgMU4LPYU",
"outputId": "24abb0f0-feab-4ce3-f43e-7e881e3eab1c"
},
"execution_count": 10,
"execution_count": null,
"outputs": [
{
"output_type": "display_data",
Expand Down Expand Up @@ -360,7 +371,7 @@
"id": "YYB-5qdPLdB3",
"outputId": "8f58ed76-0b2c-4bd9-fc19-2118c6c4659d"
},
"execution_count": 11,
"execution_count": null,
"outputs": [
{
"output_type": "display_data",
Expand Down Expand Up @@ -453,7 +464,7 @@
},
"outputId": "8ab281d2-1924-4622-daeb-ab7683442207"
},
"execution_count": 12,
"execution_count": null,
"outputs": [
{
"output_type": "stream",
Expand Down Expand Up @@ -489,7 +500,7 @@
"id": "Ik8Sg5Nmb2zT",
"outputId": "bb796582-a460-4321-aa35-438363ef803d"
},
"execution_count": 13,
"execution_count": null,
"outputs": [
{
"output_type": "display_data",
Expand Down Expand Up @@ -521,7 +532,7 @@
"metadata": {
"id": "mrmdJa2HMdhk"
},
"execution_count": 17,
"execution_count": null,
"outputs": []
},
{
Expand All @@ -537,7 +548,7 @@
"id": "wyoZEPA5Mm0A",
"outputId": "aa2e9885-deda-476f-d46c-21f3aaba5deb"
},
"execution_count": 19,
"execution_count": null,
"outputs": [
{
"output_type": "display_data",
Expand Down Expand Up @@ -601,7 +612,7 @@
"id": "z09kwBmaL-m7",
"outputId": "1af5f26f-cf63-400b-e4e6-21a0f9f7aadc"
},
"execution_count": 31,
"execution_count": null,
"outputs": [
{
"output_type": "display_data",
Expand Down Expand Up @@ -645,7 +656,7 @@
"id": "us16GFu5MCMA",
"outputId": "e11fe825-b986-40fd-ae7e-19d68b1da2ce"
},
"execution_count": 33,
"execution_count": null,
"outputs": [
{
"output_type": "display_data",
Expand Down Expand Up @@ -696,7 +707,7 @@
"id": "n3mlIzH6MJTU",
"outputId": "7ca11ba9-73fc-4ff9-aec3-ef2a95582943"
},
"execution_count": 34,
"execution_count": null,
"outputs": [
{
"output_type": "display_data",
Expand Down Expand Up @@ -744,7 +755,7 @@
"metadata": {
"id": "eIzaXmwJNWK-"
},
"execution_count": 20,
"execution_count": null,
"outputs": []
},
{
Expand All @@ -758,7 +769,7 @@
"metadata": {
"id": "0FYxJZpCOUMK"
},
"execution_count": 21,
"execution_count": null,
"outputs": []
},
{
Expand All @@ -774,7 +785,7 @@
"id": "3CQVLRJRNXdF",
"outputId": "4d0d9c12-d7f1-4039-a9c3-c817c1c68149"
},
"execution_count": 22,
"execution_count": null,
"outputs": [
{
"output_type": "display_data",
Expand Down Expand Up @@ -827,7 +838,7 @@
"metadata": {
"id": "-VykeV1yPT1j"
},
"execution_count": 23,
"execution_count": null,
"outputs": []
},
{
Expand All @@ -843,7 +854,7 @@
"id": "tai6wGhAPpyx",
"outputId": "33f84790-2092-4b58-951a-3095bbf89240"
},
"execution_count": 24,
"execution_count": null,
"outputs": [
{
"output_type": "display_data",
Expand Down Expand Up @@ -913,7 +924,7 @@
"id": "o9WD8M7vRv1h",
"outputId": "b56f6c46-e7e8-4c1b-cdc2-4daea75378a4"
},
"execution_count": 29,
"execution_count": null,
"outputs": [
{
"output_type": "display_data",
Expand Down Expand Up @@ -962,7 +973,7 @@
"id": "HBOOTG_CPAif",
"outputId": "01d9289d-8594-4be9-a3b3-9e4bb46008a2"
},
"execution_count": 30,
"execution_count": null,
"outputs": [
{
"output_type": "display_data",
Expand Down

0 comments on commit 0d33cf9

Please sign in to comment.