Commits · f0e7000604d39a88c52232ea5b669b1d995cdb8a · ESB / ONT_pilot_gitlab

Apr 26, 2020
- Update SNAKEFILE · de71ad50
  Susheel Busi authored 4 years ago
  
  de71ad50
Apr 25, 2020
- minor modifications to the original files · ce8ad8f1
  Susheel Busi authored 4 years ago
  
  ce8ad8f1
Apr 24, 2020
- updated the GTDBTK.yaml environment with the development version since the... · 18bcb007
  Susheel Busi authored 4 years ago
  
  updated the GTDBTK.yaml environment with the development version since the stable conda version is not working
  18bcb007
Apr 23, 2020
- fixed maxbin errors · 8f00cec7
  Susheel Busi authored 4 years ago
  
  8f00cec7
- fixed symlink errors · c29f1bf0
  Susheel Busi authored 4 years ago
  
  c29f1bf0
- symlinks for the assemblies for BINNING was failing, so updated the symlink command · 81e8ea16
  Susheel Busi authored 4 years ago
  
  81e8ea16
- removed the output for the wrapper rule - MAPPING · 0444d15c
  Susheel Busi authored 4 years ago
  
  0444d15c
- minor cosmetic changes to the header · a6594d5e
  Susheel Busi authored 4 years ago
  
  a6594d5e
- fixed the hybrid_build_bwa_mem_index rule · c9b3f61b
  Susheel Busi authored 4 years ago
  
  c9b3f61b
- Snakefile ready to test and take over the world · 565ce080
  Susheel Busi authored 4 years ago
  
  565ce080
- moved the Binning part upstream of all rules · aca81c2f
  Susheel Busi authored 4 years ago
  
  aca81c2f
- Final files ready for running the 2018_GDB_ONT analyses · 14a84062
  Susheel Busi authored 4 years ago
  
  14a84062
Apr 22, 2020
- Snakefile with hybrid-mapping incorporated into CCL's Snakefile · cc44828f
  Susheel Busi authored 4 years ago
  
  cc44828f
Apr 21, 2020
- updated Snakefile, cluster and config for metaT read mapping · 56248f29
  Susheel Busi authored 4 years ago
  
  56248f29
Apr 20, 2020
- added the metaT processing steps · 0fefca16
  Susheel Busi authored 4 years ago
  
  0fefca16
Apr 19, 2020
- adding updated files. Files for moving results folder, making... · 1991001e
  Susheel Busi authored 4 years ago
  
  adding updated files. Files for moving results folder, making mmseq_upset_plots and a test mmseq_snakefile
  1991001e
Apr 18, 2020
- updated Snakefile · 34f7c373
  Susheel Busi authored 4 years ago
  
  34f7c373
Apr 15, 2020
- updates to mmseq2 section made · 08570367
  Susheel Busi authored 4 years ago
  
  08570367
Mar 25, 2020
- changes to mmseq2 rules · a7376fd3
  Susheel Busi authored 5 years ago
  
  a7376fd3
- added rules for running MMSEQ2 comparisons · 551e2f15
  Susheel Busi authored 5 years ago
  
  551e2f15
Mar 19, 2020
- included nanopolish indexing · 9ccc29fd
  Susheel Busi authored 5 years ago
  
  9ccc29fd
Mar 18, 2020
- Snakefile updated · d1a9ddb7
  Susheel Busi authored 5 years ago
  
  d1a9ddb7
- Snakefile updated with parameters suggested by ONT for GPU_Basecalling · f300d548
  Susheel Busi authored 5 years ago
  
  f300d548
- added rules for running basecall_qc_merge_NO_MOD.done · bc33ef69
  Susheel Busi authored 5 years ago
  
  bc33ef69
- added rules for running NanoStat on basecalled files without any methylation modifications · edcc592d
  Susheel Busi authored 5 years ago
  
  edcc592d
- 'rule all' updated · e6f39dee
  Susheel Busi authored 5 years ago
  
  e6f39dee
Mar 17, 2020
- updated Snakefile · 9bb3c44c
  Susheel Busi authored 5 years ago
  
  9bb3c44c
- minor changes to line 61 · 0885a890
  Susheel Busi authored 5 years ago
  
  0885a890
- included 'mappers' in other redundant lines · b5b9c190
  Susheel Busi authored 5 years ago
  
  b5b9c190
- added mappers (bwa_mem and minimap2) as variables to reduce redundancy · 32131256
  Susheel Busi authored 5 years ago
  
  32131256
- adding all the pertinent files for the first time to the repository · e77b2621
  Susheel Busi authored 5 years ago
  
  e77b2621

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