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29 Open 4 Closed
29 Open 4 Closed
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Issues list

FilTar error message
#36 opened May 6, 2021 by ntinamu001
1
Where appropriate denote rule input/output dependency relationships explicitly
#35 opened Mar 20, 2021 by TBradley27
Eliminate use of shell scripts
#34 opened Mar 19, 2021 by TBradley27
Standardise and minimise name space throughout the repository
#33 opened Mar 19, 2021 by TBradley27
Add gene symbol metadata when executing APAtrap
#32 opened Mar 19, 2021 by TBradley27
Speed up the process of generating average bedgraph coverage values from many bedgraph files
#31 opened Mar 19, 2021 by TBradley27
Add rule to validate generated bedgraph files
#30 opened Mar 19, 2021 by TBradley27
Generate a report regarding the extent of 3'UTR reannotation
#29 opened Mar 18, 2021 by TBradley27
Implement a more sophisticated method of mapping chromosome/scaffold identifiers
#28 opened Mar 18, 2021 by TBradley27
Add a line at the top of each script stating its function
#27 opened Mar 18, 2021 by TBradley27
Switch to using toplevel genomes only
#26 opened Mar 18, 2021 by TBradley27
Process genomic data not split into sequencing block (i.e. contig level assemblies)
#25 opened Mar 18, 2021 by TBradley27
Switch away from using three letter species initials
#24 opened Mar 17, 2021 by TBradley27
Allow the user to set library type if this information is known in advance
#23 opened Mar 17, 2021 by TBradley27
Linting and formatting
#22 opened Jan 14, 2021 by TBradley27
Make use of snakemake resource usage profiles
#21 opened Nov 13, 2020 by TBradley27
Version tracking of dependencies
#20 opened Nov 10, 2020 by TBradley27
Manage targetscan dependencies within a single conda environment enhancement New feature or request installation Issues relating to FilTar installation and environment management
#16 opened Sep 13, 2020 by TBradley27 Manage almost all dependencies within conda
@TBradley27
Improve cluster support/integration
#15 opened Sep 13, 2020 by TBradley27
Reduce inefficiency in use of whole-genome alignments
#14 opened Sep 13, 2020 by TBradley27
Collect the 'with_reannotation' and 'without_reannotation' modules into the same directory
#13 opened Sep 13, 2020 by TBradley27
All tabular data read-in by FilTar scripts should explicitly declare column names
#12 opened Sep 13, 2020 by TBradley27
@TBradley27
Add script-level comments at the top of scripts
#11 opened Sep 13, 2020 by TBradley27
Add a basic workflow to the README
#10 opened Sep 11, 2020 by TBradley27
Enable processing of non-Ensembl GTF files
#8 opened Aug 2, 2020 by TBradley27
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