Limit : all time
all time today this week this month this year
50 results • Page 1 of 1
Sort: Rank
Rank Views Votes Replies
Showing top results for tag: transcriptome • reset
0
votes
1
reply
132
views
Sequence search parameters for annotation of de novo transcriptomes
annotation transcriptome search blast
updated 28 days ago by 4.9k • written 28 days ago by ★ 1.5k
3
votes
2
replies
182
views
problem with Trinity command run in denovo transcriptome assembly
analysis trinity transcriptome denovo
4 weeks ago by Aliviya • 0
1
vote
0
replies
90
views
KEGG pathway draw
KEGG transcriptome RNAseq
5 weeks ago by najibveto ▴ 60
2
votes
2
replies
370
views
Will this de novo transcriptome assembly be useful in looking at RNAseq differential expression?
novo quality transcriptome de assembly
updated 6 weeks ago by ★ 1.5k • written 6 weeks ago by ▴ 140
3
votes
3
replies
251
views
RNA-Seq Mapping Genome or Transcriptome
Genome Transcriptome Rna-Seq
updated 7 weeks ago by ▴ 30 • written 7 weeks ago by ▴ 30
0
votes
1
reply
150
views
Error: RSEM Bam file for variant calling
Transcriptome Variant BCFTOOLS RSEM calling
7 weeks ago by kartikayprasad ▴ 10
0
votes
0
replies
236
views
Job: (another) Fully-funded PhD scholarship on functional and evolutionary genomics [Apply by 8/15]
statistical genomics transcriptome bioinformatics evolution
9 weeks ago by Mari • 0
2
votes
0
replies
137
views
Stringtie on non model organism - how to best proceed for DE analysis?
Salmon Stringtie DESeq transcriptome rna-seq
9 weeks ago by Shred ▴ 440
7
votes
2
replies
4.5k
views
Trinity : How To Co-Assemble Different Samples (Tumor And Healthy)
trinity assembly transcriptome
updated 10 weeks ago by • 0 • written 9.6 years ago by 9.5k
2
votes
3
replies
258
views
generating transcript to gene mapping with unhelpful GFF3 file
salmon RNAseq transcriptome gff3
updated 11 weeks ago by ★ 6.3k • written 11 weeks ago by ▴ 50
0
votes
0
replies
105
views
Physical phasing of polyploid SNPs from RNA-seq data
GATK phasing transcriptome haplotype polyploid
3 months ago by jfaberha ▴ 10
4
votes
6
replies
335
views
RNA-seq for beginners
reference resequencing transcriptome gtf sequence gff
3 months ago by arko.bmb.du ▴ 20
1
vote
1
reply
149
views
How can I compare the similarities of two transcriptomes?
transcriptome similarity rnaseq
updated 3 months ago by ▴ 570 • written 3 months ago by ▴ 10
1
vote
1
reply
177
views
Multiple genes comparison
Transcriptome RNA-seq
updated 3 months ago by ▴ 150 • written 3 months ago by ▴ 10
12
votes
6
replies
500
views
Which is better: PacBio or Illumina for de novo transcriptome?
transcriptome PacBio Illumina
updated 3 months ago by 7.5k • written 3 months ago by ▴ 40
0
votes
0
replies
91
views
Differentiating alleles from paralogs in comparison of transcriptomes within species
clustering transcriptome paralog trinity assembly
3 months ago by jfaberha ▴ 10
0
votes
3
replies
1.6k
views
Genome annotation using transcriptome data
genome annotation transcriptome
updated 3 months ago by ▴ 30 • written 3.0 years ago by ▴ 10
1
vote
1
reply
130
views
Sugarcane Rerence sequence Assembly
NGS reference Sugarcane transcriptome data genome
updated 3 months ago by 106k • written 3 months ago by • 0
2
votes
3
replies
226
views
Transcriptome mapping without reference.
Transcriptome Rna-seq Expression Differential
3 months ago by tiagobellintani ▴ 40
1
vote
6
replies
482
views
Redundancy reduction of de novo transcriptome assemblies with Compacta?
de-novo transcriptome redundancy-reduction
4 months ago by Dunois ★ 1.5k
2
votes
1
reply
262
views
How to make consensus sequence from aligned reads ?
sequence Transcriptome aligned consensus reads
5 months ago by Info.shi ▴ 10
11
votes
6
replies
694
views
Forum: Is it still interesting to publish the profile of the transcriptome?
Article RNA Transcriptome Suggestion RNAseq
4 months ago by tiagobellintani ▴ 40
6
votes
11
replies
772
views
How are transcriptome annotations published?
RNAseq annotation publish transcriptome
6 weeks ago by Dunois ★ 1.5k
1
vote
5
replies
1.2k
views
Efficient way to perform fastq filtering of contaminants by read name prior to transcriptome assembly?
trinity BBmap transcriptome filtering assembly
updated 5 months ago by 106k • written 5 months ago by ▴ 10
1
vote
4
replies
539
views
Finding transcriptome coverage of genome
mapping transcriptome trinity RNAseq
updated 5 months ago by ▴ 570 • written 5 months ago by ▴ 30
2
votes
4
replies
529
views
What are the disadvantages of increasing the sequencing depth of RNA-seq experiment?
NGS RNA-Seq sequencing depth transcriptome
5 months ago by mrj ▴ 50
0
votes
0
replies
150
views
Merging Output from Trinity and Go analysis
transcriptome merge assembly
5 months ago by dimitrischat ▴ 140
2
votes
3
replies
820
views
Transcriptome assembly -- fastp vs Trimmomatic
trimming transcriptome
updated 5 months ago by 89k • written 5 months ago by ▴ 230
2
votes
2
replies
1.4k
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 5 months ago by 106k • written 5 months ago by ▴ 50
0
votes
0
replies
174
views
Stringtie output shows no expression for reference genes
stringtie programming annotation transcriptome rna
5 months ago by samhairle • 0
0
votes
1
reply
312
views
Does transcriptome assembly data contains introns?
Transcriptome RNA-Seq Stringtie Hisat2 Assembly
updated 6 months ago by 12k • written 6 months ago by • 0
0
votes
4
replies
298
views
Identify contaminants in my transcriptomic sequences
Assembly transcriptome de-novo
updated 6 months ago by 106k • written 6 months ago by ▴ 60
3
votes
8
replies
256
views
Puzzling NCBI BLAST+ output after transcriptome assembly
blast ncbi fasta transcriptome trinity
updated 7 months ago by 33k • written 7 months ago by • 0
1
vote
1
reply
273
views
How correlate between transcriptome data and expression, without proteome data?
ICGC proteome integrated analysis transcriptome
updated 8 months ago by 6.9k • written 8 months ago by ▴ 20
0
votes
7
replies
446
views
GEO Accession transcriptome data comparison with custom gene expression sets
RNA-Seq R DESeq2 GEO Transcriptome
8 months ago by sujitsilas • 0
3
votes
3
replies
278
views
Need guidance for RNA_seq analysis of Ecoli with expression vector
RNA-Seq bacteria transcriptome Assembly alignment
9 months ago by Morgan S. ▴ 40
0
votes
3
replies
391
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
11 months ago by sofiablancoglez • 0
0
votes
0
replies
346
views
Normalization for RNA-Seq samples
RNA-Seq Tissue specific Transcriptome
11 months ago by ATCG ▴ 330
0
votes
0
replies
280
views
PacBio long-reads impact in transcriptome de novo assembly
RNA-Seq Assembly Transcriptome de novo long-reads
11 months ago by Manuel Mendoza ▴ 10
0
votes
1
reply
1.9k
views
error will using transdecoder.predict
transcriptome transdecoder
updated 11 months ago by 20 • written 4.8 years ago by ▴ 60
1
vote
1
reply
350
views
CAST/EiJ mouse strain Reference Transcriptome (do we have one? if not, how to build?)
Transcriptome CAST mouse salmon
updated 11 months ago by ★ 1.3k • written 11 months ago by • 0
0
votes
0
replies
268
views
Is there any RNA-seq summary study for one certain"family" species?
transcriptome RNA-Seq specie
11 months ago by wensulin93 • 0
2
votes
4
replies
852
views
What is "Possible polymerase run-on fragment"?
transcriptome
updated 12 months ago by 34k • written 3.3 years ago by ▴ 120
4
votes
3
replies
314
views
multi species_gene name to description
gene function transcriptome
updated 13 months ago by 106k • written 13 months ago by ▴ 20
0
votes
2
replies
914
views
Subset Function in Ballgown
transcriptome differential expression
updated 14 months ago by ▴ 10 • written 22 months ago by ▴ 40
2
votes
4
replies
332
views
Find transcripts of one species in RNA-assembly
RNA-Seq blast transcriptome metagenome
14 months ago by Tom ▴ 530
0
votes
1
reply
228
views
Same transceiptome data with or without replicates
RNA-Seq transcriptome
15 months ago by rprog008 ▴ 70
2
votes
2
replies
303
views
what should I do first: transciptome annotation or DE analysis?
rna-seq assembly transcriptome annotation
updated 15 months ago by ★ 3.7k • written 15 months ago by ▴ 10
1
vote
2
replies
300
views
Where to find reference transcriptome for firefly?
scRNA-seq cellranger alignment transcriptome
updated 16 months ago by 106k • written 16 months ago by ▴ 170
1
vote
3
replies
289
views
Conservation of co-expressed genes across transcriptomes
RNA-Seq sequence transcriptome evolution
17 months ago by khhgng ▴ 70
50 results • Page 1 of 1
Recent Votes
TCGA: Does TCGA cancer studies have mRNA expression data for Control/Normal samples?
A: How To Filter Mapped Reads With Samtools
A: How To Filter Mapped Reads With Samtools
How To Filter Mapped Reads With Samtools
How To Filter Mapped Reads With Samtools
A: Multiple sam to bam
A: Multiple sam to bam
Recent Locations • All
United States, just now
United States, 2 minutes ago
Seville, ES, 4 minutes ago
United States, 5 minutes ago
United States, 5 minutes ago
United Kingdom, 7 minutes ago
Michigan, 7 minutes ago
Recent Awards • All
Supporter to sbanville • 0
Teacher to finswimmer 14k
Teacher to JC 12k
Teacher to Philipp Bayer 7.3k
Scholar to Pierre Lindenbaum 138k
Popular Question to Morgan S. ▴ 40
Scholar to GenoMax 106k
Recent Replies
Comment: what does mean this error ? "(ERR): hisat2-align exited with value 1" in mappi by reza • 0
thanks a lot
Comment: what does mean this error ? "(ERR): hisat2-align exited with value 1" in mappi by reza • 0
hisat2 -x /home/k/Desktop/arabid/fastq/2d/arabidindx/index -1 /home/k/Desktop/arabid/fastq/2d/SRR8511589_1.fastq.gz -2 /home/k/Desktop/ar…
Comment: X amino acid in ensembl by sean.cascarina • 0
I contacted the help desk at Ensembl and they said these are cases where readthrough of the stop codon is known to occur. So it seems like …
Comment: PRS in UK Biobank - no covariate file and no phenotype file by agamemnon • 0
Thank you, I have the right target data and will also extract the phenotype and covariate data. While running the first script for QCing …
Comment: Question about ROH analysis by Plink 1.9 by gubrins ▴ 90
Heys, I'm struggling to having results from plink when I try to calculate the roh in my data. I did the snp calling both with gatk and with…
Comment: How to remove Illumina TruSeq Index adapters reverse (R2 reads ) by GenoMax 106k
Can you post an example of what you are referring to? Normally trimming programs should check reverse complements of sequences they are loo…
Comment: Genozip: A new compression tool for FASTQ, BAM, VCF and more by matthew.pobox ▴ 10
This seems like a great tool which has been seriously overlooked. I've been testing it out and was able to reproduce the compression ra…
Comment: get read length from sra by Renesh ★ 2.0k
The suggested methods works. Here is another method using the [SRA toolkit][1] fastq-dump -X 1 -Z SRR5790106 | sed -n '2p' | awk '{ pr…
Comment: Primers trimming from Illumina paired-end reads by BBDuk software by GenoMax 106k
Following should work. Give it a try and let me know. bbduk.sh -Xmx2g in1=test_R1.fq in2=test_R2.fq out1=R1_trim.fq out2=R2_trim.fq li…
Answer: Database for Enhancers with Coordinates by Papyrus ★ 1.3k
Also check [EnhancerAtlas][1], apart from coordinates it provides predictions for enhancer-gene target interactions, which may be useful. …
Comment: How can I draw this plot? by gubrins ▴ 90
Heys, did you manage to plot it?
Comment: get read length from sra by GenoMax 106k
You will only get average length of reads (which may or may not be very useful) using [Entrezdirect][1]. $ esearch -db sra -query "SRR…
Comment: Interpreting output of BCFtools RoH by gubrins ▴ 90
Heys, did you manage in interpreting and visualizing the output? I'm in the same situation...
Comment: which tool can I use to detect CNVs? by brunobsouzaa ▴ 560
`cnvkit` and `ExomeDepth` are great tools for that. Also, both are pretty straightforward to use.
Comment: rsem-calculate-expression with STAR takes forever but without error by Fleur • 0
Thanks both! I will try :) :)
Traffic: 1961 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6