TBradley27 FilTar issues

TBradley27 / FilTar

Using RNA-Seq data to improve microRNA target prediction accuracy in animals

https://tbradley27.github.io/FilTar/

GNU General Public License v3.0

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issues

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FilTar error message

#36 ntinamu001 opened 3 years ago
1
Where appropriate denote rule input/output dependency relationships explicitly

#35 TBradley27 opened 3 years ago
0
Eliminate use of shell scripts

#34 TBradley27 opened 3 years ago
0
Standardise and minimise name space throughout the repository

#33 TBradley27 opened 3 years ago
0
Add gene symbol metadata when executing APAtrap

#32 TBradley27 opened 3 years ago
0
Speed up the process of generating average bedgraph coverage values from many bedgraph files

#31 TBradley27 opened 3 years ago
0
Add rule to validate generated bedgraph files

#30 TBradley27 opened 3 years ago
0
Generate a report regarding the extent of 3'UTR reannotation

#29 TBradley27 opened 3 years ago
0
Implement a more sophisticated method of mapping chromosome/scaffold identifiers

#28 TBradley27 opened 3 years ago
0
Add a line at the top of each script stating its function

#27 TBradley27 opened 3 years ago
0
Switch to using toplevel genomes only

#26 TBradley27 opened 3 years ago
0
Process genomic data not split into sequencing block (i.e. contig level assemblies)

#25 TBradley27 opened 3 years ago
0
Switch away from using three letter species initials

#24 TBradley27 opened 3 years ago
0
Allow the user to set library type if this information is known in advance

#23 TBradley27 opened 3 years ago
0
Linting and formatting

#22 TBradley27 opened 3 years ago
0
Make use of snakemake resource usage profiles

#21 TBradley27 opened 4 years ago
0
Version tracking of dependencies

#20 TBradley27 opened 4 years ago
0
v1.3.0 beta

#17 TBradley27 closed 4 years ago
0
Manage targetscan dependencies within a single conda environment

#16 TBradley27 opened 4 years ago
0
Improve cluster support/integration

#15 TBradley27 opened 4 years ago
0
Reduce inefficiency in use of whole-genome alignments

#14 TBradley27 opened 4 years ago
0
Collect the 'with_reannotation' and 'without_reannotation' modules into the same directory

#13 TBradley27 opened 4 years ago
0
All tabular data read-in by FilTar scripts should explicitly declare column names

#12 TBradley27 opened 4 years ago
0
Add script-level comments at the top of scripts

#11 TBradley27 opened 4 years ago
0
Add a basic workflow to the README

#10 TBradley27 opened 4 years ago
0
Resolve the issue of different conda installation methods

#9 TBradley27 closed 4 years ago
0
Enable processing of non-Ensembl GTF files

#8 TBradley27 opened 4 years ago
0
Few general queries

#7 ashokpatowary opened 4 years ago
1
Throw an error if the user does not specify a valid target prediction algorithm

#6 TBradley27 closed 4 years ago
1
Move rule configuration values backwards into YAML config files

#5 TBradley27 closed 4 years ago
0
Encode metadata in TSV format rather than YAML

#4 TBradley27 closed 4 years ago
1
Simplify conda environment management

#3 TBradley27 opened 4 years ago
0
Make some data download functionality non-default

#2 TBradley27 opened 4 years ago
0
Make read trimming optional

#1 TBradley27 opened 4 years ago
0