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High mapping rate with HISAT2, but low successfully assigned aligment with featureCounts
transcriptome HISAT2 featureCounts
updated 20 months ago by 141k • written 20 months ago by ▴ 40
2
votes
3
replies
1.0k
views
EdgeR model matrix for 2 plant genotypes with 2 treatments and 2 timepoints
RNA-Seq R
updated 3.3 years ago by 13k • written 3.3 years ago by ▴ 40
1
vote
5
replies
1.2k
views
The best way to analyze RNA-seq of multiple tree species in the same genus (with and without ref-genome)
RNA-Seq rna-seq R
4.0 years ago by User 4014 ▴ 40
0
votes
0
replies
631
views
de novo transcriptome assembly with >400K genes. How to proceed?
rna-seq RNA-Seq
updated 4.2 years ago by 20 • written 4.2 years ago by ▴ 40
0
votes
1
reply
737
views
Choosing a de novo assembly for DGE analysis
RNA-Seq Assembly
updated 4.3 years ago by ▴ 60 • written 4.3 years ago by ▴ 40
0
votes
6
replies
1.1k
views
Problem with FASTA headers and Trinity
rna-seq RNA-Seq sequence
4.3 years ago by User 4014 ▴ 40
0
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11
replies
2.1k
views
Quality and length trimming for de novo assembly of RNAseq
RNA-Seq rna-seq
updated 4.3 years ago by ▴ 150 • written 4.3 years ago by ▴ 40
0
votes
17
replies
2.0k
views
EMBL-api-validator -- WARNING: "exon" usually expected to be at least "15" nt long.
genome embl submission
updated 5.3 years ago by 8.5k • written 5.3 years ago by ▴ 40
9
votes
18
replies
2.0k
views
7 follow
Please advice on an experiment set-up for RNA-Seq
RNA-Seq next-gen
updated 6.1 years ago by ▴ 40 • written 6.1 years ago by ▴ 40
0
votes
7
replies
1.5k
views
sample contaminations and variant calling
snp genome next-gen
updated 6.5 years ago by 20 • written 6.6 years ago by ▴ 40
0
votes
0
replies
1.7k
views
K-mer content failed at the beginning of reads
next-gen sequencing genome
7.0 years ago by User 4014 ▴ 40
0
votes
3
replies
1.7k
views
Assembling 2x250 bp on 350 bp insert using SPAdes?
Assembly genome next-gen
7.1 years ago by User 4014 ▴ 40
3
votes
2
replies
2.5k
views
reference-guided genome assembly: stretches of Ns
Assembly genome alignment next-gen
updated 7.1 years ago by 13k • written 7.1 years ago by ▴ 40
1
vote
4
replies
2.2k
views
Double peaks on FASTQC
next-gen Assembly genome
7.1 years ago by User 4014 ▴ 40
1
vote
2
replies
2.7k
views
ITS1/2 primers for fungal endophytes in trees
endophytes ITS2 metagenomics ITS1
updated 19 months ago by 43k • written 8.7 years ago by ▴ 40
1
vote
1
reply
1.7k
views
Genome sequencing with TrueSeq PCR-free 300 or 550 bp?
genome next-gen
updated 8.1 years ago by ▴ 10 • written 8.1 years ago by ▴ 40
0
votes
2
replies
3.5k
views
MiSeq - reference database for ITS
ITS amplicon-sequencing MOTHUR
updated 15 months ago by 43k • written 8.9 years ago by ▴ 40
4
votes
3
replies
2.3k
views
quality filtering of Miseq dataset
Amplicon-sequencing
updated 2.1 years ago by 43k • written 9.4 years ago by ▴ 40
1
vote
2
replies
3.4k
views
How To Categorize Transcripts To Subsets Of Go Annotation
gene annotation
updated 12.1 years ago by 16k • written 12.4 years ago by ▴ 40
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