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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
437
views
Using a transcriptome from Trinity in Phyluce
Phyluce transcriptome RNA trinity
11 months ago by luzglongoria ▴ 50
4
votes
3
replies
561
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 15 months ago by 142k • written 15 months ago by ▴ 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 43k • written 15 months ago by ▴ 50
3
votes
4
replies
925
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
430
views
Negatively alignment with STAR
alignment bam compatibility STAR
updated 17 months ago by 142k • written 17 months ago by ▴ 50
3
votes
5
replies
754
views
STAR error with a loop
STAR RNA transcriptomics
updated 11 months ago by 43k • written 17 months ago by ▴ 50
0
votes
0
replies
477
views
Constrained rda for a PCA made with DESeq2?
PCA rda RNA DeSeq2 RNA-expression
updated 2.3 years ago by 8.7k • written 2.3 years ago by ▴ 50
2
votes
2
replies
3.1k
views
how to modify some tiplabs in ggtree?
ggtree tree tiplab bold geom_tiplab
updated 2.5 years ago by ▴ 30 • written 3.2 years ago by ▴ 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 • 0 • written 5.1 years ago by ▴ 50
2
votes
5
replies
1.1k
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
839
views
Comparing results from two different DESeq analyes
DESeq2 RNA-Seq pair-wise analyses R
updated 3.2 years ago by 19k • written 3.2 years ago by ▴ 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
2.4k
views
Problem with qualimap BAM file
RNA-Seq BAM Qualimap
updated 13 months ago by 43k • written 3.4 years ago by ▴ 50
6
votes
3
replies
2.9k
views
Problem when running FeatureCounts
RNA-Seq RNA BAM FeatureCounts
updated 13 months ago by 43k • written 3.4 years ago by ▴ 50
3
votes
6
replies
2.0k
views
Error in STAR when mapping
STAR mapping genomereference RNA-Seq
updated 3.4 years ago by 161k • written 3.4 years ago by ▴ 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
875
views
Pathway analyses with a transcriptome, which tool shall I use?
ReactomePA pathway Enrichment Analysis RNA-Seq
4.4 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 23k • written 4.4 years ago by ▴ 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 ▴ 20 • written 4.7 years ago by ▴ 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 104k • written 4.5 years ago by ▴ 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 ★ 2.4k • written 5.0 years ago by ▴ 50
4
votes
9
replies
5.0k
views
How to determine width of heatmap
pheatmap label_row heatmap
updated 5.1 years ago by 5.8k • written 5.1 years ago by ▴ 50
3
votes
8
replies
16k
views
Error when running pheatmap
pheatmap Error in hclust
5.1 years ago by luzglongoria ▴ 50
3
votes
4
replies
975
views
statistical analyses for transcriptomes
RNA-Seq R Statistical analyses
updated 5.1 years ago by 82k • written 5.1 years ago by ▴ 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 8.9k • written 5.1 years ago by ▴ 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
908
views
How to delete some contigs in an assembly
assembly RNA-Seq R
updated 5.3 years ago by 142k • written 5.3 years ago by ▴ 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 5.8k • written 5.3 years ago by ▴ 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 8.2k • written 5.3 years ago by ▴ 50
2
votes
12
replies
4.5k
views
Calculate CG content in a fastq file
RNA-Seq bash
updated 5.5 years ago by 16k • written 5.5 years ago by ▴ 50
0
votes
1
reply
1.7k
views
Plots two phylogenetic trees face to face
ape phytools trees
5.5 years ago by luzglongoria ▴ 50
0
votes
2
replies
918
views
basic command in bash
RNA-Seq filter grep
5.5 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
2.7k
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 35k • written 5.6 years ago by ▴ 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 82k • written 5.6 years ago by ▴ 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 104k • written 5.6 years ago by ▴ 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
15k
views
7 follow
How to combine two .sam files?
RNA-Seq alignment
updated 3.0 years ago by • 0 • written 5.6 years ago by ▴ 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 35k • written 5.6 years ago by ▴ 50
8
votes
11
replies
6.9k
views
Encountered internal Bowtie 2 exception (#1) bowtie2-align exited with value 1
rna-seq alignment
updated 5.6 years ago by 35k • written 5.6 years ago by ▴ 50
48 results • Page 1 of 1
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