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ncbi
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fcs
Foreign Contamination Screening caller scripts and documentation
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[BUG]: /bin/sh does not exist in container
#90
fgvieira
opened
6 hours ago
1
Issue with source code compilation “make"
#89
ShenMJ99
opened
9 hours ago
1
[FEATURE REQUEST]: Single action to trim contaminant ends and mask internal contamination
#88
dmacguigan
closed
23 hours ago
10
Issue with using get-fasta command
#87
ShenMJ99
closed
1 week ago
3
Update runners for FCS Release v0.5.4
#86
etvedte
closed
3 weeks ago
0
Problems with downloading all.gxi and all.gxs files
#85
qb-lyu
closed
1 week ago
2
Question regarding assembly
#84
abacigalupo
closed
1 week ago
1
translate score to bit-score for FCS-gx output tax-id matches?
#83
blemmond
closed
1 week ago
3
[BUG]: Contam file is empty but output shows taxonomy of contaminates
#82
brysonab
closed
1 month ago
4
FCS-GX bypasses memory limits set in the bsub command on the LSF platform
#81
eeaunin
closed
1 week ago
4
gzip: stdin: No data available
#80
eeaunin
opened
1 month ago
12
AssertionError: Integrity check failed
#79
eeaunin
closed
1 week ago
5
Is it possible to keep the FCS-GX database always loaded?
#78
eeaunin
closed
2 months ago
2
[BUG]: <title>subprocess.CalledProcessError
#77
zhaoxuetong
closed
2 months ago
4
[BUG]: <title>Download database failed, please help me to see what went wrong, thank you.
#76
zhaoxuetong
closed
2 months ago
3
[FEATURE REQUEST]: <title>How to shorten the processing time?
#75
zhaoxuetong
closed
2 months ago
1
[FEATURE REQUEST]: Add FCS-adaptor and FCS-GX "clean genome" option in the bioconda recipe & make executable names consistent
#74
LiaOb21
closed
4 months ago
3
[FEATURE REQUEST]: remove prefix to sequence names
#73
fgvieira
closed
1 week ago
4
[FEATURE REQUEST]: accept gz input for `clean genome`
#72
schellt
closed
4 months ago
2
Error: Process failed with retcode -13
#71
eeaunin
closed
2 months ago
1
segment.cpp:506 in sort_and_merge(...): Assertion failed: (prev->pos < 0) == (ivl.pos < 0)
#70
eeaunin
closed
4 months ago
2
Command terminated by signal 9
#69
eeaunin
closed
2 months ago
7
FCS-GX runtime on SGE cluster
#68
YanisChrys
closed
2 months ago
4
Using FCS-GX to split/mask internal adaptor sequences
#67
bndaniel
closed
1 week ago
13
Fatal error trying to clean genome using fcs.py
#66
hugh0335
closed
2 months ago
5
Screening for mitochondrion
#65
wharvey31
opened
5 months ago
4
[FEATURE REQUEST]: Support on FASTQ/FASTQ.gz as an input and output
#64
mingyanisa
closed
5 months ago
1
[BUG]: fix log output destination
#63
ptrebert
closed
5 months ago
2
[FEATURE REQUEST]: skip over/ignore short sequences
#62
ptrebert
opened
5 months ago
3
[BUG]: fcsadaptor gives errors related to psutil library
#61
LiaOb21
closed
2 months ago
4
[FEATURE REQUEST]: shebang for `fcs.py`
#60
schellt
closed
1 week ago
2
Incorrect identification and exclusion of valid contigs using fcs-genome/0.4.0
#59
Macrobrachium
closed
7 months ago
9
[FEATURE REQUEST]: Using FCS-GX to filter long-read contaminations?
#58
BitaoQiu
closed
7 months ago
2
FATAL: could not open image fcs-adaptor.sif: SIF imagefcs-adaptor.sif is corrupted: wrong partition size
#57
Catherine9826
closed
8 months ago
2
Running FCS-GX on genomes of unidentified prokaryotic organisms
#56
d-golzato
closed
7 months ago
4
Can run fcs.py interactively, but in a batch job keep getting: "No such file or directory: 'docker'"
#55
SchwarzEM
closed
8 months ago
2
Which manufacturers' sequencing adapters are included in the reference database of FCS-adaptor?
#54
maruiqi0710
opened
9 months ago
2
What's the effect of "--allow-same-species" option in the "fcs gx screen genome"？
#53
maruiqi0710
closed
9 months ago
2
Can I provide a tax-id at a level higher than species?
#52
maruiqi0710
closed
9 months ago
2
[BUG]: fcs.py fails to download database
#51
h836472
closed
9 months ago
5
Making singularity the default engine
#50
Jokendo-collab
closed
10 months ago
11
Update README.md
#49
etvedte
closed
10 months ago
0
[BUG]: v0.4.0 fcs.py help is broken
#48
ptrebert
closed
11 months ago
2
[BUG]: FCS-adaptor doesn't find all vec contam in one run
#47
conchoecia
closed
9 months ago
5
[DOC SUGGESTION]: Not clear what `cleaned_sequences` is in FCS tool
#46
conchoecia
closed
7 months ago
6
Understanding output
#45
RNieuwenhuis
closed
11 months ago
2
[BUG]: permanentFail during job blast
#44
egonozer
opened
1 year ago
4
[BUG]: `clean genome` introduces empty lines
#43
schellt
closed
7 months ago
2
seqtransform permanentFail : CFastaReader: Seq-id lcl|0-45901 is a duplicate around line 993
#42
scorreard
closed
12 months ago
2
Are endogenous elements removed by FCS?
#41
BenjaminGuinet
closed
12 months ago
9
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