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bhattlab
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MGEfinder
A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
MIT License
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Why was test_workdir/00.genome/efae_GCF_900639545.fna chosen as the reference genome?
#52
jiejiemao
opened
3 weeks ago
0
Hello there i'm trying to run a test on Non-toxin CD 's MGE, but i encounter an error which i can't slove
#51
CDI-PMCC
opened
2 months ago
3
unable to install using install.sh script - package dependencies not available?
#50
mafuller
opened
3 months ago
0
Confusion in Interpreting the Results
#49
miniluphy
closed
6 months ago
8
Add support for newer Biopython
#48
thomcuddihy
opened
9 months ago
0
Bump scipy from 1.4.0 to 1.10.0
#47
dependabot[bot]
opened
1 year ago
0
unable to run test data
#46
narib
opened
1 year ago
1
cutadapt: error: FASTQ file ended prematurely Cutadapt terminated with exit signal: '256'.
#45
qianxin-kxy
closed
1 year ago
1
MGE for FASTA format
#44
leggylas
closed
1 year ago
1
No Output File
#43
REMOUS-MAX
opened
1 year ago
1
Error in job genotype while creating output file
#42
Oelsakha
closed
1 year ago
7
error in step mgefinder formatbam
#41
Oelsakha
closed
1 year ago
2
Issue with pandas dependency
#40
jordiabante
closed
1 year ago
3
How to find the Insertion-Enriched Sites caused by Insertion sequences
#39
Daikuang
closed
2 years ago
1
Analysis of assembled genome
#38
drehertw
closed
1 year ago
1
Could I use it on metagenomics data？
#37
LUCAS-1873
closed
1 year ago
1
Error in job make_database while creating output files
#36
gvic628
closed
1 year ago
7
Error in pair step
#35
erinpnewcomer
closed
2 years ago
4
Request for additional information on question #30 regarding "reference"
#34
dbayles
closed
2 years ago
1
filtering used to create *.all_seqs.fna file?
#33
tracylnicholson
closed
2 years ago
1
Can MGEfinder be used for metagenomics data of infant gut?
#32
xuanji2017
closed
2 years ago
7
Using MGEfinder with multiple species
#31
spencer411
closed
2 years ago
1
the sum of unique clusters in "01.clusterseq" file does not match the number of unique clusters in "03.sum_cluseter" file
#30
xuanji2017
closed
2 years ago
1
No termini found in the input file...
#29
SamuelGreenrod
closed
1 year ago
7
No output file, no error message
#28
Kylies5
closed
3 years ago
6
KeyError
#27
Kylies5
closed
3 years ago
8
Missing input file error when file is in directory
#26
Kylies5
closed
3 years ago
3
mgefinder issue
#25
Rick-meinersmann
closed
3 years ago
3
Installation without conda or singularity
#24
samfux84
closed
2 years ago
4
Issue in converting .sam to .bam
#23
spencer411
closed
3 years ago
1
I have a problem when i use method 1 to install MGEfinder!
#22
lkj66666
closed
3 years ago
6
How to use MGEfinder software to find MGE from assembled genome in spite of raw reads
#21
shakti83kumar
closed
3 years ago
2
Error in job genotype while creating output
#20
MKorzhanova
closed
3 years ago
2
Problem with click and locale
#19
evolarjun
closed
3 years ago
1
Unable to run the workflow
#18
labrat9
closed
3 years ago
12
Calling mgefinder from a different workflow
#17
nongiga
closed
3 years ago
2
Problem with clusterseq
#16
mrozwandowicz
closed
3 years ago
7
Issue With Latency-Wait
#15
joshuakirsch
closed
3 years ago
1
Sensitivity to detect IS elements
#14
Bowmore12
closed
3 years ago
1
Categories of confidence level for the identified insertion sequence
#13
Bowmore12
closed
3 years ago
3
How to choose a reference genome
#12
yjiakang
closed
3 years ago
2
Errors at combining the inferseq files.
#11
Bowmore12
closed
4 years ago
4
Can MGEfinder detect MGEs in the presence of strain diversity?
#10
ramiroricardo
closed
4 years ago
1
Question about "Error in job make_database"
#9
JinxinMonash
closed
4 years ago
8
Error with test dataset
#8
aflores18
closed
4 years ago
7
Question about python version required
#7
BioRRW
closed
3 years ago
5
Can I use MGEfinder to Archaea data?
#6
Diamonds95
closed
4 years ago
1
Dev
#5
durrantmm
closed
4 years ago
0
Input args
#4
rneto12
closed
4 years ago
1
Workflow without raw short reads
#3
jackarnold13
closed
4 years ago
10
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