Golob-Minot geneshot issues

Golob-Minot / geneshot

MIT License

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issues

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Fix for FastqToFastaPE step in quantify module

#95 clairedubin opened 2 weeks ago
0
Incorrect default value in quantify module's help message (rc_pre_2.0 branch)

#94 clairedubin opened 1 month ago
0
Typo in main.nf (rc_pre_2.0 branch)

#93 clairedubin opened 2 months ago
0
Anndata

#92 jgolob closed 5 months ago
0
Missing slash in manifest.qc.csv

#91 clairedubin opened 5 months ago
0
Update annotation workflow

#90 sminot closed 10 months ago
1
Update annotation workflow

#89 sminot closed 10 months ago
0
getting started with geneshot on nextflow

#88 gchen98 opened 1 year ago
0
I got problem last steps.

#87 jhtrujillo closed 1 year ago
2
Error download eggnog.db

#86 jhtrujillo closed 1 year ago
1
Results directory different from wiki when using dev branch

#85 SJohnsonMayo opened 2 years ago
6
Error in addGeneAssembly with geneshot.results.hdf5?

#84 SJohnsonMayo closed 2 years ago
6
gunzip error if input is not compressed

#83 jjdevega closed 2 years ago
2
[Security] Workflow test.yaml is using vulnerable action actions/checkout

#82 akulpillai opened 2 years ago
0
Diamond task.memory

#81 ScaonE closed 2 years ago
2
Add multiprocessing for CAG creation

#80 sminot closed 3 years ago
0
Docker images - too many requests

#79 punnettsun closed 2 years ago
2
max_iters error in makeInitialCAGs module

#78 dhwanidesai opened 3 years ago
0
Preprocess only

#77 jgolob opened 3 years ago
0
Only make a gene catalog

#76 jgolob opened 3 years ago
2
Preprocessing only

#75 jgolob opened 3 years ago
0
add_corncob error

#74 jgolob opened 3 years ago
0
Trimgalore

#73 jgolob closed 3 years ago
3
Replace cutadapt with TrimGalore

#72 jgolob closed 3 years ago
0
Running geneshot using singularity

#71 slambrechts closed 3 years ago
1
dependencies

#70 slambrechts closed 3 years ago
1
nextflow.config file

#69 slambrechts closed 3 years ago
1
Allow users to input interleaved FASTQ files

#68 sminot opened 3 years ago
0
Add option to output a gene-specimen-count matrix

#67 jgolob opened 3 years ago
0
Still running preprocessing even when provided a catalog / assemblies

#66 jgolob opened 3 years ago
1
Assess CAG 'completeness' with CheckM

#65 sminot opened 3 years ago
0
Selectable CAG generation method in v0.9

#64 jgolob opened 3 years ago
3
/ref/taxonomy in HDF has tax_ids and parent IDs as objects. Should be integers

#63 jgolob closed 3 years ago
4
Shard size param

#62 jgolob closed 3 years ago
2
Gene Shard Size is too large / should be a parameter

#61 jgolob closed 3 years ago
1
Assembly files as input

#60 susheelbhanu closed 3 years ago
1
Prodigal fix

#59 jgolob closed 3 years ago
1
Prodigal running out of resources

#58 jgolob closed 3 years ago
0
Finish

#57 jgolob closed 3 years ago
6
Master Issue - v0.9

#56 sminot opened 3 years ago
8
mmseq error

#55 elffairy90 closed 3 years ago
2
Add a utility to extract gene copies by eggNOG annotation

#54 sminot closed 3 years ago
0
add extractCounts to the default workflow even when corncob is not run

#53 jgolob closed 3 years ago
2
Reference database availability

#52 jgolob opened 3 years ago
0
input file format documentation

#51 jgolob opened 3 years ago
0
cutadapt not found

#50 GaioTransposon closed 3 years ago
1
ERROR ~ unable to resolve class repackFullHDF

#49 GaioTransposon closed 3 years ago
1
resources (ncpus) and collectBreakaway error

#48 GaioTransposon closed 3 years ago
2
assert fp.endswith(".json.gz") AssertionError

#47 dhwanidesai closed 3 years ago
3
Can multiple formulas be specified

#46 rbutleriii closed 4 years ago
1