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9
votes
16
replies
3.8k
views
6 follow
covert SAM to full length fasta
fasta SAM
updated 13 months ago by 43k • written 5.7 years ago by ▴ 710
0
votes
4
replies
3.4k
views
add read group with hisat2
read group algnment HISAT2
updated 23 months ago by 142k • written 5.7 years ago by ▴ 710
10
votes
7
replies
1.3k
views
Can two mates have different file size?
sequencing fastq
5.7 years ago by marongiu.luigi ▴ 710
9
votes
20
replies
4.3k
views
Solve SAM issues flagged by Picard's ValidateSamFile
Picard SAM
updated 13 months ago by 43k • written 5.7 years ago by ▴ 710
9
votes
18
replies
16k
views
Identify insertions with IGV
IGV insertions visualization
5.7 years ago by marongiu.luigi ▴ 710
2
votes
28
replies
7.6k
views
Memory use in indexing
Assembly software error
updated 5.7 years ago by 43k • written 5.9 years ago by ▴ 710
0
votes
2
replies
2.8k
views
samtools mpileup `error uninitialized value $l in numeric lt` during BAM to FASTA conversion
samtolls mpileup bam fasta
5.8 years ago by marongiu.luigi ▴ 710
6
votes
26
replies
9.9k
views
Realign BAM files to other reference file
bam samtools
updated 13 months ago by 43k • written 5.8 years ago by ▴ 710
6
votes
10
replies
4.6k
views
install VCFtools on Ubuntu 18
ubuntu vcftools
updated 5.8 years ago by ▴ 60 • written 5.8 years ago by ▴ 710
5
votes
2
replies
6.8k
views
Separating mapped and unmapped reads from BAM file
sequencing sequence Assembly
updated 5.8 years ago by 16k • written 5.8 years ago by ▴ 710
3
votes
6
replies
1.6k
views
why HISAT2 and BWA BAM files differ in number of entries?
Assembly alignment sequencing
updated 5.8 years ago by 47k • written 5.8 years ago by ▴ 710
6
votes
4
replies
8.2k
views
samtools arror: [E::hts_idx_push] NO_COOR reads not in a single block at the end 0 -1
software error alignment
updated 5.8 years ago by 82k • written 5.8 years ago by ▴ 710
1
vote
7
replies
1.6k
views
Is there a perfect WGS dataset?
next-gen sequence
updated 5.9 years ago by 161k • written 5.9 years ago by ▴ 710
5
votes
2
replies
7.7k
views
Sequence Length Distribution after trimmomatic
next-gen sequence
5.9 years ago by marongiu.luigi ▴ 710
2
votes
3
replies
1.6k
views
when to merge lane replicates?
alignment next-gen
updated 5.9 years ago by 142k • written 5.9 years ago by ▴ 710
35
votes
15
replies
12k
views
10 follow
How to select an aligner?
RNA-Seq next-gen alignment
updated 4 months ago by • 0 • written 5.9 years ago by ▴ 710
0
votes
1
reply
856
views
EMBOSS msbar stucked
software error genome
6.0 years ago by marongiu.luigi ▴ 710
1
vote
7
replies
2.5k
views
quality value with art fastq simulator
next-gen sequencing RNA-Seq
updated 6.0 years ago by 35k • written 6.0 years ago by ▴ 710
5
votes
7
replies
1.8k
views
Change Phred quality score with DWGSIM
sequence sequencing next-gen
updated 6.0 years ago by 35k • written 6.0 years ago by ▴ 710
2
votes
13
replies
6.1k
views
Tophat Building transcriptome files synthax
rna-seq Assembly
updated 6.0 years ago by 11k • written 8.1 years ago by ▴ 710
0
votes
12
replies
4.6k
views
Install bioperl module Bio::DB::Sam on Ubuntu 17.10
software error bioperl
updated 6.1 years ago by 35k • written 6.1 years ago by ▴ 710
0
votes
4
replies
2.9k
views
How to use ART to simulate NGS data
software error sequencing genome
6.1 years ago by marongiu.luigi ▴ 710
6
votes
3
replies
1.2k
views
How is the reference genome top level constructed?
Assembly genome
updated 6.1 years ago by 23k • written 6.1 years ago by ▴ 710
9
votes
21
replies
2.7k
views
Building bioinformatics tools in Ubuntu 17.10
Assembly software error
updated 6.1 years ago by 35k • written 6.1 years ago by ▴ 710
4
votes
12
replies
1.9k
views
Install BatVI on Ubuntu
software error genome
updated 6.1 years ago by 161k • written 6.1 years ago by ▴ 710
2
votes
1
reply
1.8k
views
is -a bwtsw flag compulsory for indexing human genome with BWA?
Assembly genome sequence
6.2 years ago by marongiu.luigi ▴ 710
1
vote
2
replies
1.1k
views
reuse of compiled reference genome indices (BWA, Bowtie, Hisat etc)
Assembly genome next-gen
updated 6.2 years ago by 104k • written 6.2 years ago by ▴ 710
0
votes
1
reply
2.1k
views
computing time for BWA index
Assembly genome next-gen
updated 6.2 years ago by 104k • written 6.2 years ago by ▴ 710
1
vote
4
replies
4.4k
views
SAM MD tag for consecutive insertions/deletions
SNP genome alignment sequence
6.2 years ago by marongiu.luigi ▴ 710
1
vote
1
reply
886
views
Is the ncbi taxon code a number?
genome
updated 6.2 years ago by 15k • written 6.2 years ago by ▴ 710
0
votes
7
replies
2.1k
views
how to calculate genome coverage for integrated genomes?
Assembly genome sequencing
6.3 years ago by marongiu.luigi ▴ 710
2
votes
9
replies
4.7k
views
create GFF file for fasta reference file
genome sequence RNA-Seq
6.3 years ago by marongiu.luigi ▴ 710
3
votes
2
replies
1.8k
views
Get reference full genome sequences for selected organisms
genome blast
updated 6.3 years ago by ★ 3.0k • written 6.3 years ago by ▴ 710
4
votes
18
replies
5.8k
views
BLAT installation *** No rule to make target '../lib//jkweb.a', needed by 'blat'
Assembly software error
6.4 years ago by marongiu.luigi ▴ 710
1
vote
8
replies
3.4k
views
get final output from Trimmomatic
sequencing
6.4 years ago by marongiu.luigi ▴ 710
1
vote
8
replies
3.4k
views
download raw data from 1000 Genome project from terminal
RNA-Seq sequence
updated 6.5 years ago by 87k • written 6.5 years ago by ▴ 710
1
vote
5
replies
3.8k
views
Build Bowtie2 2.3.3.1 with make on linux 64 bit
software error
6.6 years ago by marongiu.luigi ▴ 710
3
votes
10
replies
3.0k
views
syntax tophat2 for reference index
RNA-Seq
updated 6.6 years ago by ★ 1.1k • written 6.6 years ago by ▴ 710
7
votes
8
replies
20k
views
run FASTQC on linux terminal as java script
RNA-Seq
updated 6.6 years ago by 35k • written 6.6 years ago by ▴ 710
1
vote
3
replies
2.9k
views
creating design and count matrix for rna-seq differential expression
RNA-Seq
updated 6.6 years ago by 104k • written 6.6 years ago by ▴ 710
0
votes
4
replies
5.8k
views
download sra files with sra-toolkit: switch to HTTPS
RNA-Seq next-gen
6.6 years ago by marongiu.luigi ▴ 710
5
votes
7
replies
21k
views
align fasta files using bowtie2
alignment genome sequencing
7.0 years ago by marongiu.luigi ▴ 710
0
votes
2
replies
3.2k
views
Mauve on Ubuntu 16
alignment software error
updated 7.0 years ago by 35k • written 7.5 years ago by ▴ 710
1
vote
4
replies
4.1k
views
tophat2 Error: segment-based junction search failed with err =-9
alignment RNA-Seq
updated 7.4 years ago by ▴ 100 • written 8.0 years ago by ▴ 710
0
votes
2
replies
2.3k
views
Install MAFFT on Ubuntu 16 non standard folder
alignment software error
7.5 years ago by marongiu.luigi ▴ 710
0
votes
0
replies
2.2k
views
muscle 'Non-zero return code 137' or 'Killed43' status
alignment software error
7.5 years ago by marongiu.luigi ▴ 710
0
votes
7
replies
3.3k
views
install wgsim on ubuntu 16 (1 exit status)
sequence software error SNP
updated 7.6 years ago by ★ 2.9k • written 7.6 years ago by ▴ 710
9
votes
6
replies
6.2k
views
FastUniq on linux terminal
next-gen
updated 7.7 years ago by 20 • written 8.4 years ago by ▴ 710
1
vote
8
replies
2.2k
views
Trimmomatic becomes sleeping process
Assembly
8.1 years ago by marongiu.luigi ▴ 710
0
votes
6
replies
3.1k
views
Tophat syntax to align query sequences to reference index
rna-seq alignment
updated 8.1 years ago by ★ 2.1k • written 8.1 years ago by ▴ 710
154 results • Page 3 of 4
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