issues
search
stevekm
/
reportIT
IonTorrent variant reporting pipeline for clinical interpretation of cancer panel results
GNU General Public License v3.0
7
stars
4
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
report for covid19 data
#38
gadepallivs
opened
1 year ago
1
Samples with no variants not appearing in final report
#37
stevekm
opened
6 years ago
0
Need to download other files from server
#36
stevekm
opened
7 years ago
0
Change overview report sample table caption
#35
stevekm
opened
7 years ago
0
GitHub info not being printed in the overview report
#34
stevekm
closed
7 years ago
0
Overview report variant table and IGV snapshots are not in sync
#33
stevekm
opened
7 years ago
0
IGV_snapshot_parser.sh not passing open X server value correctly
#32
stevekm
closed
7 years ago
0
Variant Summary table needs to be reordered
#31
stevekm
closed
7 years ago
0
bin setup script does not unzip IGV correctly
#30
stevekm
opened
7 years ago
1
Need example output
#29
stevekm
closed
7 years ago
1
some variants are getting left out of IGV snapshots
#28
stevekm
opened
7 years ago
1
run_samplesheet with qsub script does not wait for annotations to finish
#27
stevekm
closed
7 years ago
2
need script to run pipeline from samplesheet
#26
stevekm
closed
7 years ago
0
missing deletion mutations from pipeline output
#25
stevekm
closed
7 years ago
1
include snapshot zip with email
#24
stevekm
closed
7 years ago
0
Save stdout and stderr logs from active session script usage
#23
stevekm
opened
7 years ago
0
sometimes the IGV reporting script gets hung up
#22
stevekm
opened
7 years ago
2
paired log dir creation causes recursive symlinks
#21
stevekm
opened
7 years ago
2
need directory setup script
#20
stevekm
closed
7 years ago
2
Need stdout logging for interactive scripts
#19
stevekm
opened
7 years ago
0
Wrong NC control sample being used for IGV snapshots
#18
stevekm
closed
7 years ago
0
SQL integration in pipeline
#17
stevekm
closed
7 years ago
1
Need full analysis report
#16
stevekm
closed
7 years ago
1
'find' assertions and functions
#15
stevekm
closed
7 years ago
1
Develop database of all found variants
#14
stevekm
closed
7 years ago
1
Need to account for IonTorrent sequencing artifacts; multiple variants at locus
#13
stevekm
closed
7 years ago
1
Report script is making reports for samples with no variants
#12
stevekm
closed
7 years ago
1
IGV snapshot dirs are making recursive symlinks
#11
stevekm
closed
7 years ago
1
(Xvfb) IGV snapshot script does not work in parrallel
#10
stevekm
closed
7 years ago
1
Need to integrate tumor & tissue type
#9
stevekm
opened
7 years ago
1
Need pandoc bin download & setup info
#8
stevekm
closed
7 years ago
1
WC PMKB Excel sheet variant parsing needed
#7
stevekm
closed
7 years ago
1
IGV screenshot review feedback integration
#6
stevekm
opened
7 years ago
3
Need new 'sparse report'
#5
stevekm
closed
7 years ago
2
Create wiki entries
#4
stevekm
opened
7 years ago
0
WC IPM knowledge base integration
#3
stevekm
closed
7 years ago
1
IGV batchscripts need to be concatenated
#2
stevekm
closed
7 years ago
1
split_df_col2cols function errors on too few columns
#1
stevekm
closed
7 years ago
2