Cgigas(1) •
Dermo(1) •
FetchNGS(1) •
HPC server(1) •
Klone(10) •
NextFlow(1) •
Perkinsus(1) •
RNA seq(2) •
RNAseq(3) •
TAG seq(2) •
UW resources(1) •
WGBS(2) •
adapter(2) •
aws(3) •
ceasmallr(1) •
denovotranscript(4) •
differential abundance(1) •
fastp(2) •
fetchngs(2) •
genome versions(1) •
identifiers(1) •
klone(2) •
meetings(1) •
methylseq(2) •
name conversion(1) •
nextflow(14) •
nf core(2) •
params(1) •
pca(2) •
project setup(1) •
referencetranscript(1) •
rnaseq(4) •
seqera(3) •
test(1) •
virginica(1)
Cgigas 1
- Running RNAseq pipeline with reference transcript for C.Gigas Dataset • Emma Strand • October 9, 2024
Dermo 1
- Re-run FetchNGS for Cvirg_Perkinsus_RNAseq • Shelly Wanamaker • December 5, 2024
FetchNGS 1
- Re-run FetchNGS for Cvirg_Perkinsus_RNAseq • Shelly Wanamaker • December 5, 2024
HPC server 1
- UW bioinformatic resources and project set-up • Emma Strand • October 9, 2024
Klone 10
- Exploring nf-core differential abundance workflow • Emma Strand • December 11, 2024
- Re-run FetchNGS for Cvirg_Perkinsus_RNAseq • Shelly Wanamaker • December 5, 2024
- Run RNAseq on perkinsus datasets • Emma Strand • November 11, 2024
- Run RNAseq on perkinsus datasets • Shelly Wanamaker • November 4, 2024
- Run denovotranscript on Klone • September 25, 2024
- Run denovotranscript on Klone attempt 2 • Shelly Wanamaker • October 9, 2024
- Run denovotranscript on Klone attempt 3 • Shelly Wanamaker • November 4, 2024
- Run methylseq on Klone • Shelly Wanamaker • November 27, 2024
- Running RNAseq pipeline with reference transcript for C.Gigas Dataset • Emma Strand • October 9, 2024
- Sept. 25, 2024 Set up nextflow on UW Klone and run fetchngs • September 25, 2024
NextFlow 1
- Creating a Nextflow pipeline for gene count analysis • Steve Yost • January 6, 2025
Perkinsus 1
- Re-run FetchNGS for Cvirg_Perkinsus_RNAseq • Shelly Wanamaker • December 5, 2024
RNA seq 2
- Generic run with nf-core FetchNGS • Shelly Wanamaker • April 4, 2025
- Reprocess TAG-seq data with different FastP parameters • Shelly Wanamaker • April 15, 2025
RNAseq 3
- Run RNAseq on perkinsus datasets • Emma Strand • November 11, 2024
- Run RNAseq on perkinsus datasets • Shelly Wanamaker • November 4, 2024
- Running RNAseq pipeline with reference transcript for C.Gigas Dataset • Emma Strand • October 9, 2024
TAG seq 2
- Generic run with nf-core FetchNGS • Shelly Wanamaker • April 4, 2025
- Reprocess TAG-seq data with different FastP parameters • Shelly Wanamaker • April 15, 2025
UW resources 1
- UW bioinformatic resources and project set-up • Emma Strand • October 9, 2024
WGBS 2
- Reproduce Oyster WGBS analysis with nf-core methylseq • Shelly Wanamaker • April 7, 2025
- Run ceasmallr (C. virginica) WGBS data through nf-core methylseq pipeline • Shelly Wanamaker • May 2, 2025
adapter 2
- Generic run with nf-core FetchNGS • Shelly Wanamaker • April 4, 2025
- Reprocess TAG-seq data with different FastP parameters • Shelly Wanamaker • April 15, 2025
aws 3
- AWS Batch compute environment on Seqera • Steve Yost • November 23, 2024
- Run Seqera fetchngs pipeline for C. gigas study • Steve Yost • November 24, 2024
- Run Seqera rnaseq pipeline for C. gigas study • Steve Yost • November 24, 2024
ceasmallr 1
- Run ceasmallr (C. virginica) WGBS data through nf-core methylseq pipeline • Shelly Wanamaker • May 2, 2025
denovotranscript 4
- Run denovotranscript on Klone • September 25, 2024
- Run denovotranscript on Klone attempt 2 • Shelly Wanamaker • October 9, 2024
- Run denovotranscript on Klone attempt 3 • Shelly Wanamaker • November 4, 2024
- Run methylseq on Klone • Shelly Wanamaker • November 27, 2024
differential abundance 1
- Exploring nf-core differential abundance workflow • Emma Strand • December 11, 2024
fastp 2
- Generic run with nf-core FetchNGS • Shelly Wanamaker • April 4, 2025
- Reprocess TAG-seq data with different FastP parameters • Shelly Wanamaker • April 15, 2025
fetchngs 2
- Run Seqera fetchngs pipeline for C. gigas study • Steve Yost • November 24, 2024
- Sept. 25, 2024 Set up nextflow on UW Klone and run fetchngs • September 25, 2024
genome versions 1
- Compare genes after CGI id conversion attempt 1 • Shelly Wanamaker • December 13, 2024
identifiers 1
- Compare genes after CGI id conversion attempt 1 • Shelly Wanamaker • December 13, 2024
klone 2
- Repoint nf-core projectDir to srlab directory • Shelly Wanamaker • December 3, 2024
- Reproduce Oyster WGBS analysis with nf-core methylseq • Shelly Wanamaker • April 7, 2025
meetings 1
- SW-ES Meeting Summaries • Emma Strand • September 4, 2024
methylseq 2
- Reproduce Oyster WGBS analysis with nf-core methylseq • Shelly Wanamaker • April 7, 2025
- Run ceasmallr (C. virginica) WGBS data through nf-core methylseq pipeline • Shelly Wanamaker • May 2, 2025
name conversion 1
- Compare genes after CGI id conversion attempt 1 • Shelly Wanamaker • December 13, 2024
nextflow 14
- AWS Batch compute environment on Seqera • Steve Yost • November 23, 2024
- Exploring nf-core differential abundance workflow • Emma Strand • December 11, 2024
- Re-run FetchNGS for Cvirg_Perkinsus_RNAseq • Shelly Wanamaker • December 5, 2024
- Repoint nf-core projectDir to srlab directory • Shelly Wanamaker • December 3, 2024
- Run RNAseq on perkinsus datasets • Emma Strand • November 11, 2024
- Run RNAseq on perkinsus datasets • Shelly Wanamaker • November 4, 2024
- Run Seqera fetchngs pipeline for C. gigas study • Steve Yost • November 24, 2024
- Run Seqera rnaseq pipeline for C. gigas study • Steve Yost • November 24, 2024
- Run denovotranscript on Klone • September 25, 2024
- Run denovotranscript on Klone attempt 2 • Shelly Wanamaker • October 9, 2024
- Run denovotranscript on Klone attempt 3 • Shelly Wanamaker • November 4, 2024
- Run methylseq on Klone • Shelly Wanamaker • November 27, 2024
- Running RNAseq pipeline with reference transcript for C.Gigas Dataset • Emma Strand • October 9, 2024
- Sept. 25, 2024 Set up nextflow on UW Klone and run fetchngs • September 25, 2024
nf core 2
- Repoint nf-core projectDir to srlab directory • Shelly Wanamaker • December 3, 2024
- Run ceasmallr (C. virginica) WGBS data through nf-core methylseq pipeline • Shelly Wanamaker • May 2, 2025
params 1
- Reproduce Oyster WGBS analysis with nf-core methylseq • Shelly Wanamaker • April 7, 2025
pca 2
- PCA for gene count comparison between NCBI Crassostrea gigas Annotation Release 101 and GCF_963853765.1-RS_2024_06 reference genomes • Steve Yost • December 23, 2024
- Using ChatGPT to explore thermal resilience based on gene counts • Steve Yost • December 31, 2024
project setup 1
- UW bioinformatic resources and project set-up • Emma Strand • October 9, 2024
referencetranscript 1
- Running RNAseq pipeline with reference transcript for C.Gigas Dataset • Emma Strand • October 9, 2024
rnaseq 4
- AWS Batch compute environment on Seqera • Steve Yost • November 23, 2024
- PCA for gene count comparison between NCBI Crassostrea gigas Annotation Release 101 and GCF_963853765.1-RS_2024_06 reference genomes • Steve Yost • December 23, 2024
- Run Seqera rnaseq pipeline for C. gigas study • Steve Yost • November 24, 2024
- Using ChatGPT to explore thermal resilience based on gene counts • Steve Yost • December 31, 2024
seqera 3
- AWS Batch compute environment on Seqera • Steve Yost • November 23, 2024
- Run Seqera fetchngs pipeline for C. gigas study • Steve Yost • November 24, 2024
- Run Seqera rnaseq pipeline for C. gigas study • Steve Yost • November 24, 2024
test 1
- AWS Batch compute environment on Seqera • Steve Yost • November 23, 2024
virginica 1
- Run ceasmallr (C. virginica) WGBS data through nf-core methylseq pipeline • Shelly Wanamaker • May 2, 2025