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Filtering for tag: transcriptome • reset
11
votes
5
replies
265
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Forum: Is it still interesting to publish the profile of the transcriptome?
Article RNA Transcriptome Suggestion RNAseq
3 days ago by tiagobellintani ▴ 20
2
votes
3
replies
159
views
How are transcriptome annotations published?
RNAseq annotation publish transcriptome
2 days ago by Dunois ▴ 620
1
vote
5
replies
764
views
Efficient way to perform fastq filtering of contaminants by read name prior to transcriptome assembly?
trinity BBmap transcriptome filtering assembly
updated 4 days ago by 99k • written 5 days ago by ▴ 10
1
vote
4
replies
212
views
Finding transcriptome coverage of genome
mapping transcriptome trinity RNAseq
updated 6 days ago by ▴ 470 • written 6 days ago by ▴ 10
2
votes
4
replies
251
views
What are the disadvantages of increasing the sequencing depth of RNA-seq experiment?
NGS RNA-Seq sequencing depth transcriptome
10 days ago by mrj ▴ 20
0
votes
0
replies
53
views
Merging Output from Trinity and Go analysis
transcriptome merge assembly
11 days ago by dimitrischat ▴ 140
2
votes
3
replies
176
views
Transcriptome assembly -- fastp vs Trimmomatic
trimming transcriptome
updated 12 days ago by 87k • written 13 days ago by ▴ 210
2
votes
2
replies
1.2k
views
is quality evaluation of transcriptome assembly still required if my workflow is (good quality reads (fastp) -> bowtie2 alignment to reference genome…
RNA-seq transcriptome
updated 13 days ago by 99k • written 13 days ago by ▴ 20
0
votes
0
replies
60
views
Stringtie output shows no expression for reference genes
stringtie programming annotation transcriptome rna
17 days ago by samhairle • 0
0
votes
1
reply
128
views
Does transcriptome assembly data contains introns?
Transcriptome RNA-Seq Stringtie Hisat2 Assembly
updated 7 weeks ago by 10k • written 7 weeks ago by • 0
0
votes
4
replies
137
views
Identify contaminants in my transcriptomic sequences
Assembly transcriptome de-novo
updated 7 weeks ago by 99k • written 7 weeks ago by ▴ 50
3
votes
8
replies
155
views
Puzzling NCBI BLAST+ output after transcriptome assembly
blast ncbi fasta transcriptome trinity
updated 9 weeks ago by 32k • written 9 weeks ago by • 0
1
vote
1
reply
171
views
How correlate between transcriptome data and expression, without proteome data?
ICGC proteome integrated analysis transcriptome
updated 3 months ago by 5.8k • written 3 months ago by • 0
0
votes
7
replies
299
views
GEO Accession transcriptome data comparison with custom gene expression sets
RNA-Seq R DESeq2 GEO Transcriptome
3 months ago by sujitsilas • 0
3
votes
3
replies
172
views
Need guidance for RNA_seq analysis of Ecoli with expression vector
RNA-Seq bacteria transcriptome Assembly alignment
3 months ago by mss ▴ 40
0
votes
3
replies
290
views
Having made a paired-end and stranded-forward sequencing (NGS) implies that I will only get positive reading frames?
assembly RNA-Seq transcriptome Illumina
5 months ago by sofiablancoglez • 0
0
votes
0
replies
244
views
Normalization for RNA-Seq samples
RNA-Seq Tissue specific Transcriptome
5 months ago by ATCG ▴ 300
0
votes
0
replies
188
views
PacBio long-reads impact in transcriptome de novo assembly
RNA-Seq Assembly Transcriptome de novo long-reads
5 months ago by Manuel Mendoza ▴ 10
0
votes
1
reply
1.7k
views
error will using transdecoder.predict
transcriptome transdecoder
updated 6 months ago by 20 • written 4.3 years ago by ▴ 40
1
vote
1
reply
242
views
CAST/EiJ mouse strain Reference Transcriptome (do we have one? if not, how to build?)
Transcriptome CAST mouse salmon
updated 6 months ago by ★ 1.3k • written 6 months ago by • 0
0
votes
0
replies
197
views
Is there any RNA-seq summary study for one certain"family" species?
transcriptome RNA-Seq specie
6 months ago by wensulin93 • 0
2
votes
4
replies
713
views
What is "Possible polymerase run-on fragment"?
transcriptome
updated 7 months ago by 32k • written 2.8 years ago by ▴ 120
4
votes
3
replies
235
views
multi species_gene name to description
gene function transcriptome
updated 7 months ago by 99k • written 7 months ago by ▴ 20
0
votes
2
replies
742
views
Subset Function in Ballgown
transcriptome differential expression
updated 9 months ago by ▴ 10 • written 17 months ago by ▴ 40
2
votes
4
replies
230
views
Find transcripts of one species in RNA-assembly
RNA-Seq blast transcriptome metagenome
9 months ago by Tom ▴ 530
0
votes
1
reply
179
views
Same transceiptome data with or without replicates
RNA-Seq transcriptome
10 months ago by rprog008 ▴ 70
2
votes
2
replies
224
views
what should I do first: transciptome annotation or DE analysis?
rna-seq assembly transcriptome annotation
updated 10 months ago by ★ 3.5k • written 10 months ago by ▴ 10
1
vote
2
replies
215
views
Where to find reference transcriptome for firefly?
scRNA-seq cellranger alignment transcriptome
updated 11 months ago by 99k • written 11 months ago by ▴ 170
1
vote
3
replies
208
views
Conservation of co-expressed genes across transcriptomes
RNA-Seq sequence transcriptome evolution
11 months ago by khhgng ▴ 70
0
votes
1
reply
1.7k
views
evigene pipeline failure: missing cdna_bestorf.pl
RNA-Seq transcriptome evigene
updated 12 months ago by • 0 • written 4.4 years ago by ▴ 30
4
votes
5
replies
271
views
RNASeq data analysis without control
RNA-Seq deg transcriptome
12 months ago by devarora ▴ 420
4
votes
10
replies
2.0k
views
EvidentialGene reduces redundancy of de novo transcriptome assembly?
RNA-Seq Assembly transcriptome redundancy trinity
updated 13 months ago by • 0 • written 3.8 years ago by ▴ 70
2
votes
3
replies
274
views
RNAseq cell line as a covariate
rnaseq deseq2 cellline transcriptome
updated 13 months ago by 72k • written 13 months ago by ▴ 40
1
vote
2
replies
309
views
min_contig_length parameter in Trinity - Isoforms discrimination
transcriptome assembly trinity
13 months ago by Light92 ▴ 50
3
votes
7
replies
474
views
Trimmomatic parameters for Trinity transcriptome assembling
trimmomatic trinity Assembly transcriptome
13 months ago by Light92 ▴ 50
5
votes
8
replies
413
views
How to perform transcriptomic clustering to find bad samples?
RNA-Seq transcriptome
14 months ago by c_u ▴ 290
1
vote
4
replies
368
views
Trimming of fasta file headers
fasta RNA-Seq RNA transcriptome
updated 14 months ago by ▴ 80 • written 14 months ago by ▴ 60
3
votes
6
replies
413
views
How to identify 3'UTR region?
RNA-Seq mRNA transcriptome genome
updated 14 months ago by 11k • written 14 months ago by ▴ 60
0
votes
0
replies
250
views
GTF to match transcriptome data in TopHat
TopHat transcriptome GTF
14 months ago by blur ▴ 180
0
votes
8
replies
361
views
Best alignment software for mapping short DNA reads to transcriptome?
alignment Transcriptome DNA
14 months ago by Joel Wallenius ▴ 70
0
votes
1
reply
302
views
transcriptome and methylome dataset for various immune cells
immune cell transcriptome methylome dataset
16 months ago by Jung-ho Kong • 0
0
votes
2
replies
820
views
tBLASTn - Warning: Could not calculate ungapped Karlin-Altschul parameters due to an invalid query sequence or its translation. Please verify the que…
blast transcriptome software error alignment
16 months ago by molly77 ▴ 10
0
votes
1
reply
488
views
How to minimize chimeric transcripts assembled with StringTie
stringtie rna-seq transcriptome
17 months ago by alex.zaccaron ▴ 200
4
votes
6
replies
544
views
Maker2 Transcriptome Input
Maker2 Annotation Trinity Transcriptome
18 months ago by Colaptes ▴ 50
3
votes
1
reply
496
views
N 50 Value
transcriptome Assembly Trinity
updated 19 months ago by 45k • written 19 months ago by ▴ 10
3
votes
6
replies
1.5k
views
Tools for finding tissue specific gene expression "markers"?
transcriptome markers gene expression
updated 20 months ago by ▴ 220 • written 3.4 years ago by ▴ 50
1
vote
3
replies
431
views
Submitting many transcriptomes to TSA - how to automatize?
TSA transcriptome NCBI database submition
20 months ago by al-ash ▴ 150
0
votes
0
replies
713
views
How to compare the alignment to genome and transcriptome
RNA-Seq alignment genome transcriptome
updated 20 months ago by 47k • written 20 months ago by ▴ 50
2
votes
3
replies
530
views
Detecting GC Bias in Transcriptomes (RNA-seq)
RNA-Seq transcriptome
20 months ago by Jon17 ▴ 20
2
votes
3
replies
462
views
How do I subset a fasta file to only contain transcripts with NO BLAST hits?
RNA-Seq transcriptome annotation
updated 20 months ago by 20 • written 22 months ago by • 0
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