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Showing :
questions
6
votes
4
replies
1.0k
views
SNP analysis with an assembly
SNP
Trinity
Bowtie
10 months ago by
luzglongoria
▴ 50
0
votes
2
replies
431
views
Using a transcriptome from Trinity in Phyluce
Phyluce
transcriptome
RNA
trinity
11 months ago by
luzglongoria
▴ 50
4
votes
3
replies
549
views
Geom bar postive and negative values in a flipped plot
flip_coord
ggplot
geom_bar
13 months ago by
luzglongoria
▴ 50
0
votes
6
replies
1.1k
views
STAR is running but .sam file size does not increase after hours mapping
STAR
RNA-seq
mapping
SAM
updated 14 months ago by
GenoMax
141k • written 14 months ago by
luzglongoria
▴ 50
6
votes
9
replies
2.0k
views
Error when runing Bowtie2: (ERR): bowtie2-align exited with value 1
BAM
Bowtie
updated 11 months ago by
Ram
43k • written 15 months ago by
luzglongoria
▴ 50
3
votes
4
replies
905
views
Use an annotated transcript in STAR but no .gtf file available
gtf
RNA-seq
STAR
15 months ago by
luzglongoria
▴ 50
1
vote
1
reply
422
views
Negatively alignment with STAR
alignment
bam
compatibility
STAR
updated 16 months ago by
GenoMax
141k • written 16 months ago by
luzglongoria
▴ 50
3
votes
5
replies
744
views
STAR error with a loop
STAR
RNA
transcriptomics
updated 11 months ago by
Ram
43k • written 16 months ago by
luzglongoria
▴ 50
0
votes
0
replies
473
views
Constrained rda for a PCA made with DESeq2?
PCA
rda
RNA
DeSeq2
RNA-expression
updated 2.3 years ago by
Carlo Yague
8.7k • written 2.3 years ago by
luzglongoria
▴ 50
2
votes
2
replies
3.0k
views
how to modify some tiplabs in ggtree?
ggtree
tree
tiplab
bold
geom_tiplab
updated 2.4 years ago by
andrespara
▴ 30 • written 3.2 years ago by
luzglongoria
▴ 50
0
votes
6
replies
59k
views
Error in dimnames(x) <- dn : length of 'dimnames' [1] not equal to array extent
R
heatmap
error
updated 2.9 years ago by
Abdul Aziz
• 0 • written 5.1 years ago by
luzglongoria
▴ 50
2
votes
5
replies
1.0k
views
Select and keep only some results from DESEq2
RNA-Seq
DESEq2
results
R
3.1 years ago by
luzglongoria
▴ 50
1
vote
1
reply
817
views
Comparing results from two different DESeq analyes
DESeq2
RNA-Seq
pair-wise analyses
R
updated 3.1 years ago by
i.sudbery
19k • written 3.1 years ago by
luzglongoria
▴ 50
2
votes
3
replies
1.1k
views
Feature Counts how to identify each sample
featurecounts
RNA
genomereference
RNA-Seq
3.3 years ago by
luzglongoria
▴ 50
1
vote
10
replies
2.3k
views
Problem with qualimap BAM file
RNA-Seq
BAM
Qualimap
updated 13 months ago by
Ram
43k • written 3.4 years ago by
luzglongoria
▴ 50
6
votes
3
replies
2.8k
views
Problem when running FeatureCounts
RNA-Seq
RNA
BAM
FeatureCounts
updated 13 months ago by
Ram
43k • written 3.4 years ago by
luzglongoria
▴ 50
3
votes
6
replies
2.0k
views
Error in STAR when mapping
STAR
mapping
genomereference
RNA-Seq
updated 3.4 years ago by
Pierre Lindenbaum
161k • written 3.4 years ago by
luzglongoria
▴ 50
2
votes
4
replies
1.7k
views
Cytoscape and BINGO app empty output
cytoscape
BINGO
Gene
Ontology
RNA-Seq
4.3 years ago by
luzglongoria
▴ 50
0
votes
0
replies
870
views
Pathway analyses with a transcriptome, which tool shall I use?
ReactomePA
pathway
Enrichment Analysis
RNA-Seq
4.3 years ago by
luzglongoria
▴ 50
3
votes
6
replies
1.2k
views
How to work with SNPs when low coverage
RNA-Seq
SNP
coverage
4.4 years ago by
luzglongoria
▴ 50
6
votes
9
replies
5.8k
views
Working with VEP in anaconda
SNP
anaconda
conda
vep
RNA-Seq
updated 4.4 years ago by
Emily
23k • written 4.4 years ago by
luzglongoria
▴ 50
0
votes
4
replies
1.5k
views
Segmentation fault Freebayes
freebayes
SNP
error
segmentation
4.4 years ago by
luzglongoria
▴ 50
2
votes
3
replies
3.8k
views
Problem with font size in a tree
tree
interaction
fontsize
cophyloplot
updated 4.5 years ago by
tiffany.chin
▴ 20 • written 4.7 years ago by
luzglongoria
▴ 50
1
vote
3
replies
1.0k
views
running bwa in pair end reads
RNA-Seq
bwa
sorted
aligment
updated 4.5 years ago by
Devon Ryan
104k • written 4.5 years ago by
luzglongoria
▴ 50
4
votes
4
replies
1.4k
views
How to get general information of an assembly
RNA-Seq
assembly
software
updated 5.0 years ago by
Buffo
★ 2.4k • written 5.0 years ago by
luzglongoria
▴ 50
4
votes
9
replies
5.0k
views
How to determine width of heatmap
pheatmap
label_row
heatmap
updated 5.0 years ago by
lakhujanivijay
5.8k • written 5.0 years ago by
luzglongoria
▴ 50
3
votes
8
replies
16k
views
Error when running pheatmap
pheatmap
Error in hclust
5.0 years ago by
luzglongoria
▴ 50
3
votes
4
replies
965
views
statistical analyses for transcriptomes
RNA-Seq
R
Statistical analyses
updated 5.1 years ago by
ATpoint
81k • written 5.1 years ago by
luzglongoria
▴ 50
5
votes
2
replies
4.0k
views
heatmap with ggplot: problem when indicating min and max value
ggplot
heatmap
scale_fill_gradient
updated 5.1 years ago by
Friederike
8.9k • written 5.1 years ago by
luzglongoria
▴ 50
2
votes
4
replies
3.6k
views
How to run Trinotate
RNA-Seq
trinotate
assembly
transcriptome
5.2 years ago by
luzglongoria
▴ 50
1
vote
6
replies
1.6k
views
Basic question about SWISSPROT
SWISSPROT
RNA-Seq
transcriptome
5.2 years ago by
luzglongoria
▴ 50
3
votes
1
reply
898
views
How to delete some contigs in an assembly
assembly
RNA-Seq
R
updated 5.2 years ago by
GenoMax
141k • written 5.2 years ago by
luzglongoria
▴ 50
3
votes
5
replies
3.6k
views
How calculate CG content for each contig in an transcript assembly?
RNA-Seq
assembly
contig
transcriptome
CG content
updated 5.3 years ago by
lakhujanivijay
5.8k • written 5.3 years ago by
luzglongoria
▴ 50
0
votes
3
replies
2.9k
views
Mapping with GMAP: which output option shall I use?
genome
transcriptome
assembly
5.3 years ago by
luzglongoria
▴ 50
5
votes
5
replies
2.7k
views
Mapping transcripts to genome
assembly
gene
RNA-Seq
updated 5.3 years ago by
Charles Warden
8.2k • written 5.3 years ago by
luzglongoria
▴ 50
2
votes
12
replies
4.5k
views
Calculate CG content in a fastq file
RNA-Seq
bash
updated 5.4 years ago by
finswimmer
16k • written 5.4 years ago by
luzglongoria
▴ 50
0
votes
1
reply
1.7k
views
Plots two phylogenetic trees face to face
ape
phytools
trees
5.4 years ago by
luzglongoria
▴ 50
0
votes
2
replies
910
views
basic command in bash
RNA-Seq
filter
grep
5.4 years ago by
luzglongoria
▴ 50
0
votes
6
replies
6.6k
views
ggplot2 problem with Date format
ggplot
R
lubridate
datesinR
5.5 years ago by
luzglongoria
▴ 50
2
votes
14
replies
2.6k
views
fastq file do not look as they should (running Hisat2)
hisat2
RNA-Seq
fastq
5.6 years ago by
luzglongoria
▴ 50
3
votes
2
replies
3.7k
views
Error when running Trinity
RNA-Seq
Trinity
updated 5.6 years ago by
h.mon
35k • written 5.6 years ago by
luzglongoria
▴ 50
0
votes
0
replies
1.7k
views
Format files in Trinity
RNA-Seq
trinity
format files
5.6 years ago by
luzglongoria
▴ 50
3
votes
15
replies
2.9k
views
Alignment with bowtie2 but empty .fastq files
RNA-Seq
Assembly
updated 5.6 years ago by
ATpoint
81k • written 5.6 years ago by
luzglongoria
▴ 50
3
votes
2
replies
5.1k
views
bowtie2 alignments "Error: No input read files were valid"
RNA-Seq
bowtie2
error
updated 5.6 years ago by
Devon Ryan
104k • written 5.6 years ago by
luzglongoria
▴ 50
0
votes
3
replies
2.2k
views
Bowtie2 alignment with file.txt
RNA-Seq
Assembly
bowtie2
5.6 years ago by
luzglongoria
▴ 50
13
votes
10
replies
14k
views
7 follow
How to combine two .sam files?
RNA-Seq
alignment
updated 2.9 years ago by
1311703846
• 0 • written 5.6 years ago by
luzglongoria
▴ 50
2
votes
4
replies
2.3k
views
in silico read normalization with several pairs of reads.
RNA-Seq
updated 5.6 years ago by
h.mon
35k • written 5.6 years ago by
luzglongoria
▴ 50
8
votes
11
replies
6.8k
views
Encountered internal Bowtie 2 exception (#1) bowtie2-align exited with value 1
rna-seq
alignment
updated 5.6 years ago by
h.mon
35k • written 5.6 years ago by
luzglongoria
▴ 50
48 results • Page
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