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7
votes
2
replies
48k
views
Answer: A: Calculating TPM from featureCounts output
updated 3.4 years ago by 39k • written 7.4 years ago by 6.1k
1
vote
0
replies
2.6k
views
Answer: A: what's the best kmer size for sailfish
updated 3.5 years ago by 39k • written 7.5 years ago by 6.1k
5
votes
1
reply
2.9k
views
Answer: A: How to handle Reverse complement in De-Bruijn Graph
updated 3.5 years ago by 39k • written 7.6 years ago by 6.1k
17
votes
1
reply
25k
views
Answer: C: Could you explain the difference between STAR, KALLISTO, SALMON etc. to experime
updated 3.7 years ago by 129k • written 3.7 years ago by 6.1k
2
votes
0
replies
1.1k
views
Answer: A: Does salmon use phred scores while pseudoaligning (and/or validating mapping)?
4.1 years ago by Rob 6.1k
1
vote
1
reply
1.4k
views
Answer: C: do paired end reads both mapped to the same gene appear consecutive to each othe
4.1 years ago by Rob 6.1k
6
votes
0
replies
4.3k
views
Answer: C: Salmon (quant.sf) to txtimport
4.2 years ago by Rob 6.1k
3
votes
1
reply
4.8k
views
Answer: C: Understanding salmon codes
4.2 years ago by Rob 6.1k
5
votes
3
replies
6.5k
views
Answer: A: Salmon transcriptome generation
4.2 years ago by Rob 6.1k
5
votes
2
replies
3.7k
views
Answer: A: Salmon Counts differ in Alignment and Quasi-Mapping mode
4.3 years ago by Rob 6.1k
3
votes
0
replies
2.4k
views
Answer: C: RNA-Seq:How to know RNA-seq data is Strand-Specific or not based on only fastq
updated 4.4 years ago by 72k • written 4.4 years ago by 6.1k
5
votes
2
replies
5.4k
views
Answer: A: How to change cellranger multimapping algorithm
4.4 years ago by Rob 6.1k
4
votes
2
replies
2.1k
views
Answer: A: Average Insert Size When Using Transcript Quantification Tools Such as Salmon?
4.6 years ago by Rob 6.1k
0
votes
1
reply
3.6k
views
Answer: A: Salmon (error: SAM file and fasta file have different transcript length)
4.6 years ago by Rob 6.1k
6
votes
0
replies
3.3k
views
Answer: A: RNA-seq: differentially expressed genes without genome reference
updated 4.7 years ago by 39k • written 7.3 years ago by 6.1k
4
votes
1
reply
1.3k
views
Answer: A: Will Kallisto or Salmon perform streaming alignment from the Sequence Read Archi
4.7 years ago by Rob 6.1k
4
votes
1
reply
3.6k
views
Answer: A: Salmon Quantification for RNA-seq Read Pairs with Different Lengths
4.7 years ago by Rob 6.1k
5
votes
1
reply
3.8k
views
Answer: A: Salmon quantification vs HTSeq count quantification
4.8 years ago by Rob 6.1k
3
votes
1
reply
1.0k
views
Answer: A: Salmon Algorithm Binary Search
4.8 years ago by Rob 6.1k
3
votes
1
reply
2.5k
views
Answer: A: Stranded RNA-seq data visualization in UCSC
4.8 years ago by Rob 6.1k
2
votes
1
reply
1.3k
views
Answer: A: Conflict of abundances on different taxonomic levels using centrifuge
4.8 years ago by Rob 6.1k
0
votes
0
replies
840
views
Answer: A: Bayesian algorithm / HISAT & STAR
4.8 years ago by Rob 6.1k
16
votes
1
reply
6.9k
views
Answer: C: Mapping vs Quasi-Mapping
4.8 years ago by Rob 6.1k
3
votes
1
reply
4.2k
views
Answer: A: Big differences between mappings computed by Salmon and quantification
4.9 years ago by Rob 6.1k
5
votes
0
replies
7.9k
views
Answer: A: CDS vs cDNA vs transcript for mapping RNA-Seq reads
5.1 years ago by Rob 6.1k
2
votes
2
replies
1.9k
views
Answer: A: Library type warning in Salmon
5.1 years ago by Rob 6.1k
4
votes
3
replies
2.9k
views
Answer: A: Number of threads in BWA
5.2 years ago by Rob 6.1k
0
votes
0
replies
1.8k
views
Answer: A: Regarding GC correction in sequencing data
5.4 years ago by Rob 6.1k
1
vote
1
reply
1.1k
views
Answer: A: Hierarchical mapping of RNA-Seq data
5.5 years ago by Rob 6.1k
3
votes
0
replies
3.4k
views
Answer: A: From transcripts counts of Salmon to genes counts needed by edgeR
5.6 years ago by Rob 6.1k
2
votes
1
reply
2.7k
views
Answer: A: How to calculate TPM of transcripts with isoforms
5.6 years ago by Rob 6.1k
7
votes
0
replies
2.7k
views
Answer: A: Convert a FASTA Amino Acid Sequence to RNA (Reverse Central Dogma)
5.7 years ago by Rob 6.1k
0
votes
0
replies
1.5k
views
Answer: A: Salmon TPMs not the same for each strand individually (--libType IU)?
5.7 years ago by Rob 6.1k
3
votes
1
reply
5.4k
views
Answer: A: TPM VS FPKM VS TMM and K-mer specific expression quantification
5.8 years ago by Rob 6.1k
1
vote
0
replies
8.8k
views
Answer: A: Mapping onto the Transcriptome, RNA-seq
5.9 years ago by Rob 6.1k
1
vote
2
replies
3.8k
views
Answer: A: Reference for Salmon
5.9 years ago by Rob 6.1k
4
votes
0
replies
3.0k
views
Answer: A: Salmon libType is required but missing, although I thought I supplied it
5.9 years ago by Rob 6.1k
2
votes
0
replies
2.3k
views
Answer: A: Getting this message in SALMON's log file:""Greater than 5% of the fragments dis
5.9 years ago by Rob 6.1k
2
votes
0
replies
2.3k
views
Answer: A: salmon, kallisto psuedoaligners are failing to process
6.0 years ago by Rob 6.1k
1
vote
1
reply
1.5k
views
Answer: A: combine or split, that's a question for transcriptome assembly
6.0 years ago by Rob 6.1k
10
votes
0
replies
7.6k
views
Answer: A: Effective length in normalisation for reads counts
6.0 years ago by Rob 6.1k
1
vote
1
reply
2.7k
views
Answer: A: Looking for advice on making a grad school decision on bioinformatics/computatio
6.2 years ago by Rob 6.1k
2
votes
1
reply
1.5k
views
Answer: A: More specifics on Jellyfish -C methodology.
6.2 years ago by Rob 6.1k
0
votes
1
reply
3.0k
views
Answer: A: How is the FM-index built for multiple entries of a fasta file?
6.2 years ago by Rob 6.1k
3
votes
1
reply
4.0k
views
Answer: A: Correct for GC content bias RNASeq DE
6.2 years ago by Rob 6.1k
8
votes
1
reply
5.1k
views
Answer: C: Main difference between RSEM and k-mer based quantification methods
6.3 years ago by Rob 6.1k
5
votes
0
replies
1.9k
views
Answer: A: Differences between Counts and FPKMS
6.3 years ago by Rob 6.1k
2
votes
2
replies
1.8k
views
Answer: A: Shortest Missing K-mer
6.3 years ago by Rob 6.1k
3
votes
1
reply
1.2k
views
Answer: A: Error in the generative model of RNA-Seq?
6.4 years ago by Rob 6.1k
3
votes
0
replies
5.4k
views
Answer: A: Salmon libtype - Does it matter?
6.8 years ago by Rob 6.1k
119 results • Page 2 of 3
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