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questions
0
votes
0
replies
115
views
Is there a good tool/reference for PBP and porin analysis
PBP
porin
27 days ago by
blur
▴ 280
1
vote
1
reply
509
views
snippy error
snippy
updated 10 weeks ago by
cfos4698
★ 1.1k • written 11 weeks ago by
blur
▴ 280
0
votes
0
replies
263
views
Minimum spanning tree based on cgMLST allelic profiles
cgMLST
spanning
Minimum
tree
6 months ago by
blur
▴ 280
0
votes
1
reply
283
views
Is there a capsule typing tool for pseudomonas? (Like KAPTIVE for Kelbsiella)
pseudomonas
capsule
kaptive
updated 8 months ago by
GenoMax
141k • written 8 months ago by
blur
▴ 280
0
votes
0
replies
252
views
Where can I find a adegenet tutorial/workshop for beginners?
minimum-spanning-tree
adegenet
updated 9 months ago by
Ram
43k • written 9 months ago by
blur
▴ 280
0
votes
2
replies
496
views
Visualizing several genomes/plasmids in a single figure
visualization
10 months ago by
blur
▴ 280
2
votes
2
replies
829
views
Metadata for assemblies deposited in NCBI
ncbi
metadata
assembly
updated 13 months ago by
MirianT_NCBI
▴ 720 • written 13 months ago by
blur
▴ 280
2
votes
6
replies
999
views
Predicting protein fold using known stracture
protein
modeller
prediction
3D
updated 15 months ago by
Michael
54k • written 15 months ago by
blur
▴ 280
1
vote
1
reply
474
views
Where can I get a fasta reference for all mob/rep genes?
mob
plasmids
rep
updated 16 months ago by
bas1993
▴ 60 • written 16 months ago by
blur
▴ 280
0
votes
0
replies
347
views
snp-dists numbers don't add up
snp
snp-dists
17 months ago by
blur
▴ 280
1
vote
1
reply
580
views
What is the best tool/wrokflow for a core SNP alignment?
Gubbins
snp-sites
SNP-detector
snippy
SNP
updated 18 months ago by
Michael
54k • written 18 months ago by
blur
▴ 280
4
votes
3
replies
637
views
How do I download all genomes with specific ST type from ncbi
ncbi
18 months ago by
blur
▴ 280
0
votes
2
replies
996
views
setting overlap in DADA2 in qiime2
dada2
qiime
qiime2
21 months ago by
blur
▴ 280
0
votes
6
replies
1.5k
views
ANI for inter-species analysis and genome tree phylogeny
ANI
Identity
Nucleotide
Average
updated 2.3 years ago by
5heikki
11k • written 2.3 years ago by
blur
▴ 280
0
votes
0
replies
372
views
Can you use easyFig to visualize a single genome?
easyfig
2.4 years ago by
blur
▴ 280
0
votes
0
replies
547
views
Problem aligning ggtree circular tree labels to right angles
fan
circular
ggtree
2.5 years ago by
blur
▴ 280
6
votes
4
replies
6.9k
views
Can't locate Bio/SeqIO.pm - path error?
bioperl
updated 8 months ago by
schlogl
▴ 160 • written 2.6 years ago by
blur
▴ 280
1
vote
2
replies
930
views
Bioinformatic tool for acinetobacter plasmids
plasmidseeker
plasmidfinder
plasmid
2.8 years ago by
blur
▴ 280
1
vote
0
replies
876
views
QIIME2 quality control
control
dada2
quality
qiime2
2.8 years ago by
blur
▴ 280
2
votes
4
replies
1.8k
views
PROKKA annotation problem - wrong reference?
prokka
annotation
2.9 years ago by
blur
▴ 280
2
votes
2
replies
887
views
Problem setting blastdb in linux
blastdb
blastall
updated 2.9 years ago by
Mensur Dlakic
★ 27k • written 2.9 years ago by
blur
▴ 280
0
votes
0
replies
440
views
Creating phylogenetic trees for a full genome at once?
genomic
Phylogeny
3.0 years ago by
blur
▴ 280
0
votes
0
replies
444
views
Measuring diffeences in specific OUTs instead of full smaples in quiime2
OTU
quiime2
3.0 years ago by
blur
▴ 280
2
votes
4
replies
1.9k
views
Where can I find a fasta for mitochondrial genes?
mitochondrial
genes
updated 3.1 years ago by
Jorge Amigo
14k • written 3.1 years ago by
blur
▴ 280
2
votes
4
replies
1.6k
views
HTSeq counts gives zero when I can see the reads in the BAM file
htseq
htseq-counts
3.1 years ago by
blur
▴ 280
0
votes
0
replies
491
views
mitochondrial tRNA secondary stracture / model fold
trnas
mitochondria
stracture
3.1 years ago by
blur
▴ 280
0
votes
0
replies
483
views
exomePeak for non-fragmented libraries
exomePeak
3.2 years ago by
blur
▴ 280
2
votes
2
replies
3.8k
views
bowtie2 --un vs --un-conc
bowtie2
updated 3.2 years ago by
Carlo Yague
8.7k • written 3.2 years ago by
blur
▴ 280
1
vote
7
replies
1.7k
views
Riboseq - pairs unaligned to rRNA get mixed up
riboseq
bwa
3.2 years ago by
blur
▴ 280
0
votes
11
replies
1.6k
views
No coverage in macs2 peak summit!
macs2
peaks
updated 3.3 years ago by
Biostar
20 • written 3.4 years ago by
blur
▴ 280
0
votes
0
replies
557
views
TopHat2 --prefilter-multihits option gives supp. alignments?
tophat2
--prefilter-multihits
3.3 years ago by
blur
▴ 280
0
votes
1
reply
823
views
compare two groups of multiple bed files
bed
bedtools
updated 13 months ago by
Ram
43k • written 3.4 years ago by
blur
▴ 280
5
votes
2
replies
3.5k
views
Cut & run - bowtie2 dovetail option
cut and run
dovetail
bowtie2
updated 15 months ago by
baijiangshan9726
• 0 • written 3.5 years ago by
blur
▴ 280
1
vote
1
reply
1.2k
views
htseq-count without GTF?
FPKM
count
htseq
htseq-count
gtf
updated 3.5 years ago by
ATpoint
82k • written 3.5 years ago by
blur
▴ 280
0
votes
0
replies
662
views
How do I get a histone-to-gene table/map to correlate with genes?
histone
3.6 years ago by
blur
▴ 280
1
vote
4
replies
838
views
GFF3 transcript name
gff3
gff
transcript
resource
3.6 years ago by
blur
▴ 280
1
vote
3
replies
2.3k
views
R package or tool to draw peaks on chromosomes (like in UCSC)
R
visualization
ucsc
updated 3.7 years ago by
bernatgel
★ 3.4k • written 3.7 years ago by
blur
▴ 280
0
votes
3
replies
733
views
MSA program that allows collpase of identical reads
MSA
multi sequence alignmen
collapse
updated 3.7 years ago by
Mensur Dlakic
★ 27k • written 3.7 years ago by
blur
▴ 280
0
votes
0
replies
1.3k
views
Is there a way to download fasta files from Repbase free?
repbase
3.7 years ago by
blur
▴ 280
0
votes
0
replies
485
views
Issue getting right strand in ccat
ccat
peakranger
chip-seq
3.7 years ago by
blur
▴ 280
0
votes
1
reply
843
views
Finding regulatory or structural elements
ChIP-Seq
structural elements
updated 3.8 years ago by
Papyrus
★ 2.9k • written 3.8 years ago by
blur
▴ 280
0
votes
0
replies
597
views
How do I learn to do ribo_seq the right way?
ribo seq
3.8 years ago by
blur
▴ 280
1
vote
1
reply
1.1k
views
Centrimo from the MEME-suit --neg option
centrimo
meme
neg
3.9 years ago by
blur
▴ 280
3
votes
7
replies
1.4k
views
peak summit in macs not the highest point
macs
peak summit
3.9 years ago by
blur
▴ 280
0
votes
2
replies
965
views
How can get overlap size in bedtools multi-intersect?
bedtools
multiintersect
3.9 years ago by
blur
▴ 280
1
vote
4
replies
1.1k
views
ribosome profiling problems
ribosome profiling
4.2 years ago by
blur
▴ 280
0
votes
0
replies
695
views
GTF to match transcriptome data in TopHat
TopHat
transcriptome
GTF
4.2 years ago by
blur
▴ 280
11
votes
9
replies
6.5k
views
6 follow
How do I know if I have DNA contamination in RNA-seq data?
RNA-Seq
contamination
updated 4.4 years ago by
zebasilio
• 0 • written 5.2 years ago by
blur
▴ 280
1
vote
5
replies
724
views
Where can I find a list of mitochondrial tRNA locations?
tRNAs
4.7 years ago by
blur
▴ 280
1
vote
2
replies
837
views
DB for small RNAs in plant genomes?
small RNA
DB
4.8 years ago by
blur
▴ 280
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