add 20240201 daily bits

posts/2024/2024-02-01-Daily-Bits---February-2024/index.qmd

@@ -10,8 +10,29 @@ engine: knitr
 categories: 
   - 2024
   - Daily Bits
+bibliography: references.bib
 ---
 
 ## 20240201
 
 ### In Lab
+
+-   Lab meeting.
+
+-   Helped Eric get started with RNA quantification using Qubit.
+
+### [Coral E5](https://github.com/urol-e5/deep-dive) (GitHub repo)
+
+-   Installed [XICRA](https://github.com/HCGB-IGTP/XICRA) [@sanchezherrero2021] on Raven to identify isomiRs in sRNA-seq data.
+
+    -   Installation was a bit bumpy, due to some weird Conda/Mamba "flexible solve" problem, but got that straightened out with `conda config --set channel_priority flexible`.
+
+    -   Installation test(s) had issues. I created the following GitHub Issues on the developer's site in hopes of getting help:
+
+      - [`installer.sh error`](https://github.com/HCGB-IGTP/XICRA/issues/47)
+
+      - ["No samples were retrieved" in test data](https://github.com/HCGB-IGTP/XICRA/issues/42)
+
+### [CEABIGR](https://github.com/sr320/ceabigr) (GitHub repo)
+
+- Need to generate R<sup>2</sup> values and slope of exon expression for all genes, Exons 1 - 6.

posts/2024/2024-02-01-Daily-Bits---February-2024/references.bib

@@ -0,0 +1,14 @@
+
+@article{sanchezherrero2021,
+	title = {Paired-end small RNA sequencing reveals a possible overestimation in the isomiR sequence repertoire previously reported from conventional single read data analysis},
+	author = {Sanchez Herrero, Jose Francisco and Pluvinet, Raquel and Luna de Haro, Antonio and Sumoy, Lauro},
+	year = {2021},
+	month = {04},
+	date = {2021-04-26},
+	journal = {BMC Bioinformatics},
+	volume = {22},
+	number = {1},
+	doi = {10.1186/s12859-021-04128-1},
+	url = {http://dx.doi.org/10.1186/s12859-021-04128-1},
+	langid = {en}
+}