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Rfam
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rfam-family-pipeline
Backend for the Rfam family building pipeline
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Removes SS_cons gaps from cmemit -c | cmalign alignment
#102
nawrockie
closed
2 months ago
0
Adds support for CONFIGUR squeue state
#101
nawrockie
closed
3 months ago
1
Sets <n> to an integer for sbatch --mem-per-cpu=<n>
#100
nawrockie
closed
3 months ago
2
For rewrite_seed_with_rf.pl, SCORES and SEEDSCORES can be empty
#99
nawrockie
closed
3 months ago
0
Slurmize dequeuer
#98
nawrockie
closed
4 months ago
1
W/slurm, squeue outputs first 25 chars of unames, instead of first 10
#97
nawrockie
closed
4 months ago
1
Adds bit scores to output of overlap checking with other families (rfci.pl and rfnew.pl (at least))
#96
nawrockie
closed
11 months ago
1
Slurm support
#95
nawrockie
closed
5 months ago
9
Bugfix seedqc
#94
nawrockie
closed
1 year ago
1
minor fixes to rfci
#93
emmaco
closed
1 year ago
0
update emails and move to config
#92
emmaco
closed
1 year ago
0
Fix add ref
#91
blakesweeney
closed
1 year ago
0
Seed QC check
#90
nawrockie
closed
1 year ago
3
Write seed file
#89
emmaco
closed
1 year ago
1
FOR DISCUSSION: check rfamlive for seed info to remove need for some NCBI fetching
#88
nawrockie
closed
1 year ago
3
in QC::optional overlap check now ignores families in same clan
#87
nawrockie
closed
2 years ago
2
Fixes previous commit (767a1b8) by commenting out substitutions from …
#86
nawrockie
closed
2 years ago
1
Rfsearch big models
#85
nawrockie
closed
2 years ago
2
Speeds up commits by simplifying xml handling in genbank_fetch_seq_info()
#84
nawrockie
closed
2 years ago
1
Changes cmalign_wrapper to allow specification of MPI/non-MPI
#83
nawrockie
closed
2 years ago
1
Makes threaded calibration default, instead of MPI. MPI possible with…
#82
nawrockie
closed
2 years ago
2
CM now rebuilt if it was built with infernal v1.1x to v1.1.3
#81
nawrockie
closed
2 years ago
2
update params in R-scape command
#80
emmaco
closed
2 years ago
0
Codon changes
#79
emmaco
closed
2 years ago
0
Fix `Tick-borne` spelling on codon
#78
nancyontiveros
closed
2 years ago
0
Flavivirus PLRV
#77
nancyontiveros
closed
2 years ago
0
HCV families
#76
nancyontiveros
closed
2 years ago
0
Add plant telomerase family and include in clan http://europepmc.org/article/MED/31392988
#75
nancyontiveros
opened
2 years ago
0
Unable to download accessions via tree controls
#74
emmaco
opened
2 years ago
0
Get authorization token
#73
blakesweeney
opened
2 years ago
0
Install Perl libraries on Codon
#72
AntonPetrov
closed
2 years ago
0
Install external software on Codon
#71
AntonPetrov
closed
2 years ago
0
Do not validate taxids when using -onlydesc in rfci.pl
#70
AntonPetrov
opened
3 years ago
0
Update ZWD families missing pseudoknots
#69
AntonPetrov
closed
3 years ago
2
Iss67
#68
AntonPetrov
closed
3 years ago
0
QC step based on length of model
#67
nawrockie
closed
3 years ago
0
Resolve group name issue in rfam/cloud:kubes image
#66
kalvari
opened
3 years ago
1
Rewrite the PDB plugin
#65
AntonPetrov
closed
2 years ago
1
Adds genbank->apikey to rfam.conf
#64
AntonPetrov
opened
3 years ago
0
Added motif id lookup function
#63
kalvari
closed
3 years ago
0
Omit versions of rfamseq on Cloud
#62
kalvari
opened
3 years ago
0
Update rfam_cloud.conf
#61
kalvari
closed
3 years ago
0
Replaces docker image with one on Rfam docker hub
#60
kalvari
closed
3 years ago
0
Adds user certificate sign request manifests
#59
kalvari
closed
3 years ago
0
Family inconsistency between rfam_live and SVN
#58
kalvari
closed
3 years ago
6
Remove hard-coded paths in updateTaxonomyWebsearch.pl
#57
kalvari
opened
3 years ago
0
Release 14.4
#56
kalvari
closed
3 years ago
0
Dealing with multiple taxids by taking first one (iss#54)
#55
nawrockie
closed
3 years ago
0
Multiple taxids for a single sequence
#54
nawrockie
opened
3 years ago
0
Fix family entry RF04034 (_2 label issue)
#53
kalvari
closed
3 years ago
1
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