Template:ListUserTasks

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Task Name	Start Date	End Date	Description	Hours	Task Status	Request	Request Status
Corecosting support in November	1 November 2024	30 November 2024			Finished	Corecosting 2023	Closed
Counting sgRNA	4 March 2024	11 March 2024	It was supposed to easy and strightforward. But the experiment was unsuccessful and we spent many hours with Irene to figure out what was going on. I still charged a standard for minimum for this analysis.		Finished	Agendo 2024BD271. GU AYTESALV_01. QC of sgRNAs (GeCKO mouse library) in 2 versions	Closed
2 independent analyses. STandard. They didn't ask for anything else.	12 February 2024	22 March 2024			Finished	Agendo 2024BD268. GU SANCHEZMON_02. ChIP-seq. Human	Accepted
whole analysis	1 February 2024	19 March 2024			Finished	New kits Stranded total RNA (2024BD269)	Accepted
whole analysis	1 February 2024	13 March 2024			Finished	Truseq adaptors (2024BD272)	Accepted
whole analysis	25 January 2024	14 March 2024			Finished	Setting up new technology (2023BD259)	Accepted
used nf-core pipeline, then diffbind	24 January 2024	28 February 2024			Finished	Agendo 2024BD265. ATAC-seq Drosophila.	Accepted
Standard RNA-seq and DE analysis	23 January 2024				Running	Agendo: 2024BD266. RNA-seq.20 samples.	Accepted
Single cell	1 January 2024	1 March 2024			Finished	Analysis of single cell RNA seq data from breast cancer [2023BD261]	Closed
custom analysis	1 January 2024	1 March 2024			Finished	CAPPITELLIVIN_01 results (2024BD270)	Accepted
whole analysis	1 January 2024	1 March 2024			Finished	WES final analysis (SERRANOLUI_25 and 29) [2024BD267]	Accepted
Developing tool	1 January 2024	26 February 2024	Improved parallelisation. Added two extra steps. Added another R script. Tested on a huge file		Finished	Continuous development for tapestri pipeline	Accepted
two projects	1 January 2024	1 March 2024			Finished	QC for genomics Unit MONTSERRATNUR_08 and ARMSTRONGJUD_01 [2023BD264 and 2023BD263]	Closed
run nf-core pipeline, did diffbind analysis, repeating with some samples excluded	4 December 2023	14 December 2023			Finished	Agendo: 2023BD257. ATAC-seq mouse.	Closed
analysis using mageck software	20 November 2023	16 January 2024			Finished	Agendo 2023BD256. Amplicon sequencing.	Closed
Estimated development associated to Angular widget creation and associated issues	19 November 2023	31 December 2023			Finished	Qsample development and preparation for production and publication 2023 - Part 2	Accepted
Containerize the tapestri tools	15 November 2023	23 November 2023	We put the tapestri tool inside a singularity container		Finished	Development of the Nextflow tapestri pipeline [2023BD055]	Closed
Make Nextflow pipeline for the first steps	15 November 2023	21 November 2023	The code is here: https://github.com/biocorecrg/nf-tapestri I tested the pipeline with a toy dataset up to cellfinder_MCL.		Finished	Development of the Nextflow tapestri pipeline [2023BD055]	Closed
Ongoing development in October	14 November 2023		Qsample development		Finished	Qsample development and preparation for production and publication 2023 - Part 2	Accepted
Specific task for Agostina Bianchi	14 November 2023	18 November 2023	Help for parallelizing a step.		Finished	Development of the Nextflow tapestri pipeline [2023BD055]	Closed
Support for containerization and running	1 November 2023	30 November 2023	Allowed installation in a container environment		Finished	Development of the Nextflow tapestri pipeline [2023BD055]	Closed
Running modified pipeline	1 November 2023	13 November 2023	single allele cut and run analysis		Finished	Allele specific CUT and RUN [2023BD234]	Closed
Added sniffle and trust4 + merging old pipe	1 November 2023	12 November 2023	I added back some steps from old pipe to the new one adding trust4 and sniffle.		Finished	Mapping of the translocation landscape in healthy donors [2023BD054]	Closed
Standard RNA-seq and DE for 2 independent experiments.	1 November 2023	29 November 2023			Finished	Agendo 2023BD233 & 2023BD244. LOPEZCRI_06 & LOPEZCRI_07. mRNA-seq. 2 experiments.	Closed
Analysis, PCA, DE, heatmaps.	1 November 2023	15 November 2023			Finished	Agendo 2023BD253. GU MARTIEUL_29. RNA-seq mouse.	Accepted

... further results

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