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11
votes
5
answers
8.8k
views
6 follow
5
answers
Convert Fas/Qual Into Fastq?
fasta fastq quality conversion written 9.0 years ago by Ahdf-Lell-Kocks • 1.6k • updated 26 days ago by anicet.ebou • 160
1
vote
0
answers
102
views
0
answers
one- or two-nucleotide quality dips in RNAseq data
illumina quality rna rna-seq written 28 days ago by domelevo • 0
0
votes
0
answers
164
views
0
answers
Clustering of SNPs toward same QUAL values
quality freebayes snp variants written 5 months ago by Begonia_pavonina • 20 • updated 5 months ago by Biostar ♦♦ 20
1
vote
1
answer
208
views
1
answer
sequencing depth vs quality assembly
assembly quality written 7 months ago by v.shapovalova1 • 10 • updated 7 months ago by Mensur Dlakic • 8.1k
0
votes
1
answer
183
views
1
answer
How can I filter RNA-seq reads to remove reads where more than 50% of the read is low quality (Q<20)?
genome quality rna-seq filtering written 7 months ago by mar77 • 20
7
votes
2
answers
493
views
2
answers
quality check of bam files
gatk quality bam sam written 8 months ago by gubrins • 60 • updated 8 months ago by Pierre Lindenbaum ♦ 132k
0
votes
2
answers
916
views
2
answers
How to measure the quality of a predicted protein?
quality prediction protein written 3.6 years ago by l.souza • 70 • updated 8 months ago by geethus2009 • 0
4
votes
1
answer
4.8k
views
1
answer
How To Set A Threshold On Mapping Quality
quality mapping written 9.9 years ago by Junfeng • 330 • updated 10 months ago by caro-ca • 20
4
votes
1
answer
215
views
1
answer
What kind of biological factors can reduce the quality of reads?
quality sequence low sequencing written 12 months ago by ericjanhoekstra • 0 • updated 12 months ago by GenoMax ♦ 94k
0
votes
0
answers
244
views
0
answers
Read quality only 14
sequencing quality quality score identical fastqc written 13 months ago by ericjanhoekstra • 0 • updated 13 months ago by GenoMax ♦ 94k
3
votes
1
answer
528
views
1
answer
How to calculate TIN score of the GSE dataset to perform some post quality checks on RNASeq dataset
quality rna-seq written 14 months ago by naseerkhan861 • 10 • updated 14 months ago by i.sudbery ♦ 10k
0
votes
0
answers
404
views
0
answers
How can I use BBMap reformat.sh to correctly retrieve fastq quality scores from a bam file?
software error reformat.sh quality bam bbmap written 15 months ago by thequokka • 0
2
votes
1
answer
378
views
1
answer
In the reformat tool of BBmap what is the meaning of Read1_linear and Read1_log
reads quality bbmap written 16 months ago by Joseph Hughes • 2.8k • updated 16 months ago by h.mon ♦ 32k
0
votes
2
answers
919
views
2
answers
Trimmomatic is removing excessive reads after trimmimg
trimmomatic quality rna-seq written 17 months ago by sneha108ss • 20
0
votes
0
answers
750
views
0
answers
Fastqc works in terminal fastqc not found during jupyter call
software error assembly quality reads fastqc written 18 months ago by bz3 • 0
3
votes
0
answers
2.0k
views
0
answers
Which Msa Scoring Methods Did You Use?
quality multiple written 9.4 years ago by Aleksandr Levchuk ♦ 3.2k • updated 20 months ago by Biostar ♦♦ 20
2
votes
3
answers
8.7k
views
8 follow
3
answers
Tophat Rna-Seq Mapping Quality
tophat mapping rna-seq quality written 7.7 years ago by siyu • 140 • updated 20 months ago by Biostar ♦♦ 20
51
votes
3
answers
3.8k
views
7 follow
3
answers
What Are Some Sanity Checks That Should Be Performed On Ngs Data?
quality next-gen pipeline sequencing written 10.1 years ago by Jeremy Leipzig ♦ 19k • updated 22 months ago by Biostar ♦♦ 20
4
votes
0
answers
1.1k
views
0
answers
Unexpected hump in GC content distribution from FasQC report in ChIP-seq
quality chip-seq fastqc written 22 months ago by msimmer92 • 260
8
votes
1
answer
3.2k
views
1
answer
Is there a way to do read filtering (MAPQ> certain value) on a BAM instead of SAM file?
quality bam sam filtering mapq written 2.2 years ago by msimmer92 • 260
0
votes
0
answers
476
views
0
answers
Problem in Sequence Length Distribution
trimmomatic quality sequence lenght fastqc written 2.1 years ago by vitorgomesbio • 0
12
votes
2
answers
8.3k
views
2
answers
What is a bad GATK Genotype Quality?
quality snp written 5.6 years ago by devenvyas • 660 • updated 2.1 years ago by Biostar ♦♦ 20
2
votes
1
answer
1.7k
views
1
answer
Assembly With Phrap With Some Missing Quality Files.
fasta assembly quality written 10.6 years ago by Joseph Hughes • 2.8k • updated 2.4 years ago by _r_am ♦ 32k
13
votes
3
answers
7.4k
views
3
answers
What To Do With An Error In The Fastq Illumina Quality Scores
quality next-gen fastx fastq sequencing written 10.8 years ago by Allpowerde • 1.2k • updated 2.4 years ago by _r_am ♦ 32k
1
vote
1
answer
658
views
1
answer
miRNA-seq quality drops at certain positions
quality mirna rna-seq fastqc written 2.4 years ago by kim.malek90 • 0 • updated 2.4 years ago by GenoMax ♦ 94k
2
votes
1
answer
752
views
1
answer
Metagenomics: rationale behind Q trimming
illumina metagenomics bbduk quality trimming written 2.5 years ago by f.a.galkin • 40 • updated 2.5 years ago by finswimmer ♦ 14k
81
votes
9
answers
28k
views
31 follow
9
answers
How To Assess The Quality Of An Assembly? (Is There No Magic Formula?)
assembly quality next-gen written 8.0 years ago by diltsjeri • 440 • updated 2.5 years ago by alslonik • 170
3
votes
2
answers
1.5k
views
2
answers
Difference between marking duplicates and filtering BAM on phred score
duplicates next-gen picard quality alignment written 2.6 years ago by Nalini • 10 • updated 2.6 years ago by d-cameron • 2.3k
4
votes
1
answer
611
views
1
answer
Microarray Probesets Quality Control - Why exclude non-autosomal probesets?
control quality autosomes microarray probesets written 2.6 years ago by Volka • 120 • updated 2.6 years ago by Devon Ryan ♦ 98k
2
votes
1
answer
1.2k
views
1
answer
Per tail sequence quality fail
quality tile fastqc written 2.6 years ago by misterie • 90 • updated 2.6 years ago by Devon Ryan ♦ 98k
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