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questions
2
votes
1
reply
375
views
RNA-Seq expression analysis
RNA-seq
nextflow
heatmap
gene-expression
updated 11 weeks ago by
dthorbur
★ 1.9k • written 11 weeks ago by
Ric
▴ 430
0
votes
1
reply
872
views
Polishing PacBio or ONT with Illumina
pacbio
polish
ONT
illumina
updated 13 months ago by
mathias.lorieux
• 0 • written 2.4 years ago by
Ric
▴ 430
4
votes
6
replies
2.0k
views
Removing a DOT after each sequence
sequence
bioawk
updated 14 months ago by
Jeremy
▴ 890 • written 3.5 years ago by
Ric
▴ 430
0
votes
1
reply
513
views
expansions and contractions from OrthoFinder
protein
python
orthofinder
updated 15 months ago by
mohammadhassanj
▴ 260 • written 15 months ago by
Ric
▴ 430
0
votes
4
replies
837
views
Manually order the set fails in UpsetR
r
ggplot2
upsetr
updated 16 months ago by
Ram
43k • written 16 months ago by
Ric
▴ 430
1
vote
3
replies
846
views
UpSetR plot of Orthofinder results failed
upsetR
r
orthofinder
plot
updated 17 months ago by
zx8754
11k • written 17 months ago by
Ric
▴ 430
4
votes
2
replies
2.1k
views
Upset plot using python
python
orthofinder
upset
17 months ago by
Ric
▴ 430
0
votes
2
replies
840
views
Iso-seq mapping and annotation
alignment
mapping
iso-seq
annotation
updated 2.2 years ago by
William Rowell
▴ 280 • written 2.2 years ago by
Ric
▴ 430
0
votes
1
reply
581
views
Could not find <WellSample> in input dataset. Will not add BioSamples to output XMLs
rna
pacbio
ccs
iso-seq
lima
updated 2.2 years ago by
William Rowell
▴ 280 • written 2.2 years ago by
Ric
▴ 430
6
votes
16
replies
5.4k
views
10 follow
Annotation pipelines in 2018
assembly
RNA-Seq
genome
gene
updated 2.2 years ago by
BioinformaticBird
▴ 110 • written 5.7 years ago by
Ric
▴ 430
0
votes
2
replies
829
views
SnpEff does not create htmlStats
snpeff
snps
2.4 years ago by
Ric
▴ 430
3
votes
7
replies
2.5k
views
diamond seems to run out of memory
alignment
gene
updated 2.5 years ago by
buchfink
▴ 250 • written 2.5 years ago by
Ric
▴ 430
1
vote
1
reply
848
views
How to train annotations tools
genome
annotation
gene
updated 2.5 years ago by
Philipp Bayer
8.3k • written 2.5 years ago by
Ric
▴ 430
0
votes
1
reply
673
views
overlaps between subfeatures in the underlying annotation
annotation
gene
updated 2.5 years ago by
lieven.sterck
15k • written 2.5 years ago by
Ric
▴ 430
0
votes
2
replies
1.0k
views
Protein filtering for annotation
genbank
annotation
gene
updated 2.6 years ago by
lieven.sterck
15k • written 2.6 years ago by
Ric
▴ 430
1
vote
1
reply
589
views
Avoiding Manual Gene Curation
annotation
gene
updated 2.6 years ago by
GenoMax
141k • written 2.6 years ago by
Ric
▴ 430
2
votes
1
reply
762
views
Retrieving sequences and Blast them
blast
updated 2.6 years ago by
Philipp Bayer
8.3k • written 2.6 years ago by
Ric
▴ 430
2
votes
3
replies
971
views
plant viruses sequences
alignment
gene
updated 2.7 years ago by
GenoMax
141k • written 2.7 years ago by
Ric
▴ 430
0
votes
0
replies
523
views
tree in newick format for
gene
newick
MCScanX
2.9 years ago by
Ric
▴ 430
1
vote
1
reply
2.8k
views
sam_hrecs_error Malformed key:value pair
alignment
updated 3.0 years ago by
GenoMax
141k • written 4.3 years ago by
Ric
▴ 430
0
votes
1
reply
830
views
exon skipping and intron retention analyse
RNA-Seq
alignment
gene
updated 3.1 years ago by
boluda.navarro
• 0 • written 3.2 years ago by
Ric
▴ 430
5
votes
3
replies
1.9k
views
comparing annotations between genomes.
annotation
gff
liftOver
CrossMap
updated 3.5 years ago by
Priyam
▴ 20 • written 6.3 years ago by
Ric
▴ 430
1
vote
2
replies
1.4k
views
bcftools for plant SNPs
SNP
sequence
updated 3.5 years ago by
Pierre Lindenbaum
161k • written 3.5 years ago by
Ric
▴ 430
0
votes
0
replies
1.3k
views
bcf: unknown file type
snp
updated 3.5 years ago by
Pierre Lindenbaum
161k • written 3.5 years ago by
Ric
▴ 430
1
vote
1
reply
1.0k
views
GO annotations into GFF3
annotation
go
updated 3.5 years ago by
JC
13k • written 3.5 years ago by
Ric
▴ 430
0
votes
0
replies
698
views
Reactome for Plants
pathway
gene
annotation
3.6 years ago by
Ric
▴ 430
0
votes
0
replies
562
views
Non redundant ID associating with GO and Pathway
alignment
GO
pathway
3.6 years ago by
Ric
▴ 430
0
votes
3
replies
1.2k
views
InterProScan for Plants
gene
protein
annotation
pathways
ontology
3.6 years ago by
Ric
▴ 430
0
votes
1
reply
712
views
Finding common and different genes between species
RNA-Seq
gene
annotation
3.7 years ago by
Ric
▴ 430
2
votes
2
replies
930
views
pathway analysis in plants
Assembly
gene
annotation
analysis
pathway
updated 3.7 years ago by
Tm
★ 1.1k • written 3.7 years ago by
Ric
▴ 430
2
votes
2
replies
1.1k
views
annotation with Augustus
gene
genome
annotation
augustus
3.7 years ago by
Ric
▴ 430
2
votes
1
reply
1.0k
views
Failed to merge BAM files
bash
samtools
updated 3.8 years ago by
Shalu Jhanwar
▴ 520 • written 3.8 years ago by
Ric
▴ 430
0
votes
0
replies
1.2k
views
orthomcl to venn diagram
orthomcl
family genes
ortholog
venn diagram
3.8 years ago by
Ric
▴ 430
0
votes
1
reply
658
views
StringTie required filtered BAM
RNA-Seq
gene
annotation
assembly
updated 4.0 years ago by
Kristoffer Vitting-Seerup
★ 4.0k • written 4.1 years ago by
Ric
▴ 430
2
votes
4
replies
1.6k
views
StringTie output to train Augustus
gene
annotation
4.1 years ago by
Ric
▴ 430
4
votes
5
replies
1.6k
views
Repeats detection in a genome
Assembly
genome
annotation
updated 4.1 years ago by
Juke34
8.5k • written 4.1 years ago by
Ric
▴ 430
0
votes
2
replies
925
views
sparsehash FATAL ERROR: failed to allocate 19 groups
abyss
Assembly
updated 4.2 years ago by
john
▴ 50 • written 4.2 years ago by
Ric
▴ 430
9
votes
10
replies
4.2k
views
how to adjust BAM header after extracting only mapped reads from BAM files
bam
samtools
updated 4.2 years ago by
liorglic
★ 1.4k • written 6.8 years ago by
Ric
▴ 430
0
votes
7
replies
1.5k
views
gff3_sp_complement_annotations.pl parameter settings
gene
annotation
4.2 years ago by
Ric
▴ 430
0
votes
0
replies
1.0k
views
no unique mapped paired-end reads in BAM file
alignment
ngs
sequencing
4.2 years ago by
Ric
▴ 430
0
votes
1
reply
1.1k
views
samtools merge not working
samtools
alignment
next-gen
sequencing
updated 4.2 years ago by
Pierre Lindenbaum
161k • written 4.2 years ago by
Ric
▴ 430
0
votes
4
replies
2.6k
views
How to retrieve from a GFF3 file a AA and CDS files
gene
annotation
updated 4.2 years ago by
Juke34
8.5k • written 4.2 years ago by
Ric
▴ 430
0
votes
22
replies
3.8k
views
changing ID in an existing GFF3 file
gene
annotation
updated 4.2 years ago by
lieven.sterck
15k • written 4.4 years ago by
Ric
▴ 430
0
votes
4
replies
1.1k
views
only unique mapped paired-end reads
alignment
next-gen
sequence
4.3 years ago by
Ric
▴ 430
2
votes
2
replies
1.7k
views
BBmap caused Not in GZIP format
bbmap
sequencing
4.3 years ago by
Ric
▴ 430
0
votes
7
replies
1.0k
views
creating tag count file
RNA-Seq
4.4 years ago by
Ric
▴ 430
1
vote
3
replies
1.8k
views
extracting unmapped reads from PAF file
alignment
mapping
4.4 years ago by
Ric
▴ 430
1
vote
3
replies
8.0k
views
counting the number of reads in FASTQ files
next-gen
sequencing
coverage
updated 4.4 years ago by
swbarnes2
14k • written 4.4 years ago by
Ric
▴ 430
0
votes
5
replies
1.2k
views
intersecting two GFF3 missing data from the second file
annotation
bedtools
genome
4.5 years ago by
Ric
▴ 430
0
votes
1
reply
839
views
Removing adapters for assembly
abyss
assembly
updated 4.5 years ago by
Mensur Dlakic
★ 27k • written 4.5 years ago by
Ric
▴ 430
129 results • Page
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