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CDCgov
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tostadas
🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission
https://cdcgov.github.io/tostadas/
Apache License 2.0
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[External] [Bug] test fails at validation step
#201
ammaraziz
opened
1 month ago
0
Rsv vadr refactor kao
#200
jessicarowell
closed
3 months ago
0
[External] [Feature] Clarify Conda Requirement
#199
garfinjm
opened
4 months ago
0
[Internal] [Feature] Make these custom field validations "smarter"
#198
jessicarowell
opened
5 months ago
0
Submission fasta reroute ick4
#197
jessicarowell
closed
5 months ago
0
Patch concatgffs ick4
#196
jessicarowell
closed
5 months ago
0
write fasta straight to Genbank file instead of merging with metadata first
#195
jessicarowell
closed
5 months ago
0
Test data variola update kao
#194
jessicarowell
closed
5 months ago
0
change container from seqsender to tostadas
#193
jessicarowell
closed
5 months ago
0
Fix null path error for submission
#192
kyleoconnell
closed
5 months ago
0
[Internal] [Bug] fasta_path cannot be empty (sra-only submissions)
#191
jessicarowell
closed
5 months ago
0
User provided annotations for genbank submission
#190
kyleoconnell
closed
5 months ago
1
[Internal] [Feature] Accommodate additional biosample metadata templates starting with wastewater
#189
kyleoconnell
opened
5 months ago
0
Update container ick4
#188
jessicarowell
closed
5 months ago
0
Submission ch path kao
#187
kyleoconnell
closed
5 months ago
0
fixed channel mixup and removed remnants of utility function
#186
kyleoconnell
closed
5 months ago
0
removed utility signal and cleanup files
#185
kyleoconnell
closed
5 months ago
0
Seqera suggestions
#184
robsyme
closed
5 months ago
0
[Internal] [Feature] Ensure metadata validation is checking all fields required for NCBI submission
#183
kyleoconnell
opened
6 months ago
0
Update README.md
#182
RamiyapriyaS
closed
6 months ago
0
[Internal] [Feature] Recode SeqSender to modify data validation
#181
kyleoconnell
opened
6 months ago
0
Update README.md
#180
RamiyapriyaS
closed
6 months ago
0
Samplesheet check metadata ufp0
#179
kyleoconnell
closed
5 months ago
0
Samplesheet check metadata ufp0
#178
jessicarowell
closed
6 months ago
0
Params and metadata fix ick4
#177
jessicarowell
closed
6 months ago
0
[Internal] [Feature] Evaluate if we need Run_utility or not
#176
kyleoconnell
closed
5 months ago
1
Update modules .config
#175
kyleoconnell
closed
5 months ago
0
Update README.md
#174
RamiyapriyaS
closed
6 months ago
0
[Internal] [Bug] Won't accept any 'dots' in sample file names
#173
jessicarowell
opened
6 months ago
0
[Internal] [Feature] Refactor to support nanopore data
#172
jessicarowell
opened
6 months ago
0
change the . to - in species ID, in multifasta and metadata
#171
jessicarowell
closed
6 months ago
0
Add bakta missing ick4
#170
jessicarowell
closed
6 months ago
0
[Internal] [Feature] Evaluate if we need 'Check Files' Module.
#169
kyleoconnell
closed
6 months ago
1
update test data
#168
jessicarowell
closed
6 months ago
0
Seqsender update
#167
jessicarowell
closed
6 months ago
0
update staphb container yml file for new seqsender code
#166
jessicarowell
closed
5 months ago
0
Merging into Dev instead of Main.
#165
kyleoconnell
closed
5 months ago
0
merge refactoring of bakta to a single subworkflow into dev
#164
jessicarowell
closed
6 months ago
0
merge bakta module fixes into dev
#163
jessicarowell
closed
6 months ago
0
161 refactor bakta with extra params
#162
kyleoconnell
closed
6 months ago
0
[Internal] [Test] Refactor BAKTA to a single subworkflow instead of calling the processes in the main workflow.
#161
kyleoconnell
closed
6 months ago
0
[Internal] [Bug] **Installation for CDC**
#160
lskatz
closed
6 months ago
1
Bakta Refresh
#159
kyleoconnell
closed
6 months ago
0
[Internal] [Feature] Convert param validation to nf-core validation plugin
#158
kyleoconnell
closed
6 months ago
1
Add new test data kao
#157
kyleoconnell
closed
6 months ago
0
GitHub pages to master
#156
macoven-del
closed
6 months ago
1
[Internal] [Feature] Move viral and bacterial annotation to subworkflows
#155
kyleoconnell
closed
6 months ago
0
[Internal] [Feature] Check metadata date format
#154
kyleoconnell
opened
7 months ago
0
Dev
#153
kyleoconnell
closed
7 months ago
0
Subworkflow refactor kao (update to nf-core standards)
#152
kyleoconnell
closed
7 months ago
0
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