Issues · A.J. Sethi / ClaiRO · GitLab

Create a method to run the Rscript directly on the commandline and determine statistical power

#1 · opened Apr 03, 2020 by A.J. Sethi Apr 4, 2020
- CLOSED
- 1
updated May 23, 2020
Complete basic R pipeline to get statistically significant dSKI

#2 · opened Apr 03, 2020 by A.J. Sethi
- CLOSED
- 0
updated Apr 11, 2020
Call splicing

#3 · opened Apr 03, 2020 by A.J. Sethi
- CLOSED
- 0
updated Apr 13, 2020
Filter IR events based on splicing results

#4 · opened Apr 03, 2020 by A.J. Sethi
- CLOSED
- 1
updated May 23, 2020
Ensure that .bai files are linked properly during spliceCalling

#5 · opened Apr 11, 2020 by A.J. Sethi
- CLOSED
- 0
updated Apr 13, 2020
Incorporate star 2-pass SJ out into partial splice calling

#6 · opened Apr 13, 2020 by A.J. Sethi
- CLOSED
- 1
updated May 23, 2020
Use multiple novel splicing detectors, including STAR 2 pass, to call reads that effectively span novel splicing junctions

#7 · opened Apr 26, 2020 by A.J. Sethi
- CLOSED
- 1
updated May 23, 2020
Cluster samples by splicing kinetics rather than by gene expression?

#8 · opened Apr 26, 2020 by A.J. Sethi
- CLOSED
- 0
updated May 12, 2020
Figure out why ggsashimi-do-plot.sh doesn't work (issue is linked to input_bams.tsv generation)

#9 · opened May 15, 2020 by A.J. Sethi
- CLOSED
- 2
updated May 23, 2020
RNA-Pluto.sh: Remove any intron spanning reads that contain splicing, based on CIGAR string

#10 · opened May 19, 2020 by A.J. Sethi
- CLOSED
- 0
updated May 19, 2020
Follow up on NCI help request for "undefined symbol: __intel_sse2_strlen"

#11 · opened May 22, 2020 by A.J. Sethi
- CLOSED
- 2
updated Jul 20, 2020
Make the program into an executable

#12 · opened Jun 01, 2020 by A.J. Sethi
- CLOSED
- 1
updated Jun 24, 2020
Strand the introns

#13 · opened Jun 10, 2020 by A.J. Sethi
- CLOSED
- 1
updated Jun 13, 2020
Follow up on magic-BLAST strand error

#14 · opened Jun 14, 2020 by A.J. Sethi
- CLOSED
- 1
- 1
updated Jun 24, 2020
Modularise the use of STAR mapping in pluto-do-map.sh

#16 · opened Jun 24, 2020 by A.J. Sethi
- CLOSED
- 1
updated Jun 26, 2020
Add the uniqueIntrons annotation to pluto-do-index.sh

#17 · opened Jun 27, 2020 by A.J. Sethi
- CLOSED
- 0
updated Jul 20, 2020
ClaiRO-ExoDUs: Add annotations for internal and external cassette exons to the extract-genomic-features.sh script

#18 · opened Jul 20, 2020 by A.J. Sethi
- CLOSED
- 0
updated Oct 18, 2020