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mycobactopia-org
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MTBseq-nf
MTBSeq made simple and easy using Nextflow and nf-core standard.
https://doi.org/10.5281/zenodo.5498063
MIT License
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Allow users to input a CSV/TSV file
#33
abhi18av
closed
2 years ago
1
Create a DAG file for the batch/parallel workflows
#32
abhi18av
closed
2 years ago
3
Test all global params per module
#31
abhi18av
closed
2 years ago
0
Benchmark with the vanilla `mtbseq` tool to document run-time
#30
abhi18av
closed
2 years ago
2
Extract all native tool commands from the logs
#29
abhi18av
closed
2 years ago
3
[FIX] using snakecase on params
#28
Mxrcon
closed
3 years ago
1
Change all params from camelCase to snake_case
#27
abhi18av
closed
3 years ago
0
Globals params and real world testing
#26
abhi18av
closed
2 years ago
7
Sync the stub and script sections
#25
abhi18av
closed
2 years ago
1
[DEV] Adding instructions to create log files using `stdout` and `stderr`
#24
Mxrcon
closed
3 years ago
16
Create a standard pipeline params file including all options for (sub-)modules
#23
abhi18av
closed
2 years ago
3
Accomodate NCBI key input in params
#22
abhi18av
closed
2 years ago
0
[ENHANCEMENT] Cleanup on configurations
#21
Mxrcon
closed
3 years ago
4
[DEV/FIX] TBfull module dev and fix on global params
#20
Mxrcon
closed
3 years ago
1
Make the configurations more readable.
#19
Mxrcon
closed
3 years ago
4
Implement TBFull workflow
#18
abhi18av
closed
3 years ago
0
[DEV] parameters populate
#17
Mxrcon
closed
3 years ago
4
[Dev] Adding realistic output names for stubs
#16
Mxrcon
closed
3 years ago
1
[DOCS] adding a resource about options
#15
Mxrcon
closed
3 years ago
2
Creating a table to explain the parameters on resources
#14
Mxrcon
closed
3 years ago
2
Update the stubs for realistic file names based on the mock files
#13
abhi18av
closed
3 years ago
1
Add a sleeper process for stubs
#12
abhi18av
closed
3 years ago
3
Introduce the optional use of a samplesheet to simplify the input/channel path names
#11
abhi18av
closed
2 years ago
1
Add logs for informative warnings and error messages
#10
abhi18av
closed
2 years ago
2
Accomodate the global options for customizing MTBSeq
#9
abhi18av
closed
3 years ago
4
Finalize modules wrt stubs - initial work.
#8
abhi18av
closed
3 years ago
3
Allow users to start from intermediate steps
#7
abhi18av
closed
3 years ago
1
Sync dev with master
#6
abhi18av
closed
3 years ago
4
[Dev] Adding resource and readme
#5
Mxrcon
closed
3 years ago
0
Add basic structure to individual modules
#4
Mxrcon
closed
3 years ago
4
Add stubs ( + mock data) for individual modules
#3
Mxrcon
closed
3 years ago
0
Add stubs to individual modules
#2
abhi18av
closed
3 years ago
9
Initiate the development board
#1
abhi18av
closed
3 years ago
0
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