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Showing :
answers
11
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3
replies
1.0k
views
Answer:
Answer: STAR aligner - Is this still maintained?
26 days ago by
Rob
7.1k
4
votes
2
replies
732
views
Answer:
Answer: How to represent arbitrarily length kmer?
5 months ago by
Rob
7.1k
3
votes
0
replies
898
views
Answer:
Answer: Understanding Differing results between STAR and kallisto
7 months ago by
Rob
7.1k
3
votes
1
reply
815
views
Answer:
Answer: Alternative gap introduced when comparing insertion/deletion results between min
8 months ago by
Rob
7.1k
1
vote
1
reply
1.4k
views
Answer:
Answer: Salmon ~ Effective Length
8 months ago by
Rob
7.1k
2
votes
1
reply
1.5k
views
Answer:
Answer: Salmon vs Kallisto vs RSEM
8 months ago by
Rob
7.1k
3
votes
1
reply
680
views
Answer:
Answer: Number of non-ATCG nucleotides replaced by Salmon
8 months ago by
Rob
7.1k
5
votes
1
reply
1.0k
views
Answer:
Answer: Details on salmon index
9 months ago by
Rob
7.1k
0
votes
1
reply
1.0k
views
Answer:
Answer: Mapping vs Alignment mode in Salmon
12 months ago by
Rob
7.1k
6
votes
0
replies
2.3k
views
Answer:
Answer: is oxford nanopore technology data paired or single end sequencing?
12 months ago by
Rob
7.1k
0
votes
1
reply
1.7k
views
Answer:
Answer: Downstream analysis from STAR Alignment at transcript level
12 months ago by
Rob
7.1k
2
votes
1
reply
1.1k
views
Answer:
Answer: salmon with long read
13 months ago by
Rob
7.1k
6
votes
2
replies
2.1k
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Answer:
Answer: What Are The Most Influential Bioinformatics/Computational Biology Papers Of 202
14 months ago by
Rob
7.1k
4
votes
0
replies
1.1k
views
Answer:
Answer: Fetch Fastq files directly for SRA data
16 months ago by
Rob
7.1k
0
votes
0
replies
1.3k
views
Answer:
Answer: scRNAseq: thoughts on merging datasets generating from different version of 10x
19 months ago by
Rob
7.1k
6
votes
1
reply
3.0k
views
Answer:
Answer: Mapping vs Alignment
19 months ago by
Rob
7.1k
1
vote
1
reply
1.1k
views
Answer:
Answer: How does salmon uses polyester?
21 months ago by
Rob
7.1k
1
vote
0
replies
1.3k
views
Answer:
Answer: How to get fraction of unspliced reads for specific gene from scRNAseq Cell Rang
23 months ago by
Rob
7.1k
6
votes
2
replies
2.7k
views
Answer:
Answer: How does 10x Genomics 3' single cell data have reads aligning to exons that aren
23 months ago by
Rob
7.1k
7
votes
1
reply
3.6k
views
Answer:
Answer: long read + salmon? (transcript abundance)
updated 23 months ago by
ATpoint
86k • written 23 months ago by
Rob
7.1k
1
vote
1
reply
1.2k
views
Answer:
Answer: Salmon lib_format_counts.json - explanation
23 months ago by
Rob
7.1k
1
vote
2
replies
1.5k
views
Answer:
Answer: Salmon TPM calculation constant
23 months ago by
Rob
7.1k
1
vote
1
reply
1.6k
views
Answer:
Answer: CellRanger v. 2.0 and v. 7.0
2.2 years ago by
Rob
7.1k
3
votes
1
reply
1.3k
views
Answer:
Answer: High discrepancy between Primary estimate and Bootstraps from Salmon
2.3 years ago by
Rob
7.1k
3
votes
0
replies
760
views
Answer:
Answer: Stranded or unstranded? That is the question
2.4 years ago by
Rob
7.1k
2
votes
1
reply
1.2k
views
Answer:
Answer: Salmon libtype guessing and mapping bias
2.4 years ago by
Rob
7.1k
2
votes
0
replies
3.6k
views
Answer:
Answer: Can bioinformatics Phds be completely or almost completely done remotely?
2.4 years ago by
Rob
7.1k
1
vote
1
reply
945
views
Answer:
Answer: Splice aware or not for RNA sequence data
2.5 years ago by
Rob
7.1k
2
votes
0
replies
1.4k
views
Answer:
Answer: strand specificity
2.6 years ago by
Rob
7.1k
2
votes
1
reply
2.2k
views
Answer:
Answer: Help needed to troubleshoot a Bioconda recipe for a Rust tool
2.6 years ago by
Rob
7.1k
3
votes
1
reply
2.1k
views
Answer:
Answer: Effect of Bootstrapping/Gibbs Sampling in Salmon Counts
2.7 years ago by
Rob
7.1k
0
votes
1
reply
1.1k
views
Answer:
Answer: Is it correct to use Tophat2 directly followed by Cuffquant to only align to the
2.8 years ago by
Rob
7.1k
4
votes
1
reply
2.4k
views
Answer:
Answer: How does Salmon bootstrapping work?
2.8 years ago by
Rob
7.1k
0
votes
0
replies
847
views
Answer:
Answer: Why is an effective length of a trasncript better than normal length?
3.0 years ago by
Rob
7.1k
3
votes
0
replies
3.6k
views
Answer:
Answer: Fastest way to parse through a fasta file in python
3.1 years ago by
Rob
7.1k
4
votes
2
replies
1.4k
views
Answer:
Answer: jellyfish count discrepancy between results obtained with and without -C optio
3.2 years ago by
Rob
7.1k
1
vote
1
reply
2.3k
views
Answer:
Answer: Very low read counts for PD1 when using STAR aligner compared to BWA
3.3 years ago by
Rob
7.1k
4
votes
1
reply
6.6k
views
Answer:
Answer: UMAP vs "rigorous" t-SNE
3.5 years ago by
Rob
7.1k
4
votes
1
reply
3.0k
views
Answer:
Answer: k-mer counters - presence/absence matrix
3.5 years ago by
Rob
7.1k
0
votes
2
replies
2.7k
views
Answer:
Answer: STARsolo --EmptyDrops_CR parameters
3.6 years ago by
Rob
7.1k
2
votes
1
reply
3.5k
views
Answer:
Answer: Star alingment, Salmon quantification
3.8 years ago by
Rob
7.1k
7
votes
1
reply
2.9k
views
Answer:
Answer: Inconsistency between alignment rates of BWA-mem and bowtie2
3.8 years ago by
Rob
7.1k
3
votes
0
replies
2.3k
views
Answer:
C: Quantify Isoforms in RNA-Seq data
4.2 years ago by
Rob
7.1k
10
votes
1
reply
9.6k
views
Answer:
A: Rust or C++, what to learn after Go for high-performance bioinformatics tools?
4.3 years ago by
Rob
7.1k
11
votes
0
replies
9.6k
views
Answer:
A: Rust or C++, what to learn after Go for high-performance bioinformatics tools?
4.3 years ago by
Rob
7.1k
2
votes
1
reply
7.6k
views
Answer:
A: update salmon with conda
4.3 years ago by
Rob
7.1k
4
votes
1
reply
3.0k
views
Answer:
A: Gibbs sampling/bootstrap replicates in Salmon
4.4 years ago by
Rob
7.1k
2
votes
1
reply
4.2k
views
Answer:
A: How can I align single RNA seq(scRNAseq) data by using STAR or another aligner?
4.4 years ago by
Rob
7.1k
2
votes
1
reply
1.9k
views
Answer:
A: rsem-simulate-reads: simulating different data
4.5 years ago by
Rob
7.1k
14
votes
1
reply
11k
views
Answer:
A: How does salmon deal with decoy?
4.5 years ago by
Rob
7.1k
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