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24
votes
3
answers
9.9k
views
7 follow
3
answers
Filtering Paired End Reads
filter fastq fastx written 8.3 years ago by brentp ♦ 22k • updated 5 weeks ago by RamRS ♦ 18k
16
votes
3
answers
2.6k
views
3
answers
A Grep For Gene Ontology ?
gene filter written 8.5 years ago by Pierre Lindenbaum ♦ 113k • updated 6 weeks ago by RamRS ♦ 18k
1
vote
1
answer
125
views
1
answer
Using one bam file with huge coverage, How to generate several bam files with different coverage
filter snps caller bam written 6 weeks ago by tarek.mohamed • 180 • updated 6 weeks ago by WouterDeCoster ♦ 32k
3
votes
1
answer
165
views
1
answer
Error while trying to filter a .vcf.gz file with a bed.gz file
filter error bed file bed written 7 weeks ago by ricfoz • 20 • updated 7 weeks ago by RamRS ♦ 18k
1
vote
1
answer
109
views
1
answer
GEO search filtering
geo rnaseq filter written 9 weeks ago by cilgaiscan • 30 • updated 9 weeks ago by btsui • 270
0
votes
1
answer
207
views
1
answer
Filter Alt Reads from BAM at List of Known Het Sites
reads filter bam written 10 weeks ago by alongalor • 0
6
votes
1
answer
473
views
1
answer
(Sanity check) Too many SNPs?
filter next-gen variant written 11 months ago by rightmirem • 50 • updated 3 months ago by Biostar ♦♦ 20
6
votes
2
answers
994
views
2
answers
1000Genome SV integrated map's power for SV filter
filter 1000 genome project structural variation written 2.5 years ago by michealsmith • 740 • updated 3 months ago by LGMgeo • 90
3
votes
1
answer
219
views
1
answer
Extracting Cumulative (Rare) Allele Frequencies for a Subset of Variants From a VCF
vcf filter rare variant tests enrichment written 3 months ago by maegsul • 110 • updated 3 months ago by Pierre Lindenbaum ♦ 113k
0
votes
0
answers
220
views
0
answers
GOexpress analysis, removing genes with a score of 0?
goexpress filter expressio set rna-seq remove written 3 months ago by draper • 0
6
votes
2
answers
229
views
5 follow
2
answers
Filter sam/bam files
filter bam samtools sam gbs written 3 months ago by ramesh.8v • 200 • updated 3 months ago by swbarnes2 ♦ 4.2k
1
vote
1
answer
186
views
1
answer
Filtering reads on the basis of percentage of ambiguous(N's) characters
filter fastq rna-seq written 4 months ago by Varun Gupta • 1.0k • updated 4 months ago by Pierre Lindenbaum ♦ 113k
1
vote
2
answers
386
views
2
answers
Extracting genotypes and filtering from a VCF file containing multiple exomes of families
vcf filter exome dna-seq genotype written 4 months ago by gradstudentNew • 10 • updated 4 months ago by Pierre Lindenbaum ♦ 113k
2
votes
2
answers
182
views
2
answers
Filtering GO terms by neuromuscular processes
filter interactions disease go protein written 5 months ago by Swimming bird • 10 • updated 4 months ago by jean.elbers • 370
2
votes
1
answer
153
views
1
answer
Using the ranking value to filter
discosnp++ discosnp rna-seq variantcalling filter written 6 months ago by vguerracanedo • 10 • updated 6 months ago by pierre.peterlongo • 830
1
vote
1
answer
453
views
1
answer
How to filter VCF where at least x% of the individuals have DP>=10 and GQ>=20
vcf filter gatk written 8 months ago by hellbio • 330 • updated 8 months ago by Pierre Lindenbaum ♦ 113k
0
votes
1
answer
340
views
1
answer
remove lowly expressed genes by selecting genes that had FPKM > 0
filter rna-seq written 8 months ago by DataFanatic • 110
0
votes
0
answers
404
views
0
answers
Use Blast for the three species of Leishmania in order to take only the common sequences in fasta file
fasta filter blast leismania sequences written 11 months ago by dzisis1986 • 20 • updated 9 months ago by Biostar ♦♦ 20
2
votes
1
answer
387
views
1
answer
Filter SNP's for no more than 3 mismatches per 10 bp window
filter mismatch snp gatk written 9 months ago by shubhra.bhattacharya • 60 • updated 9 months ago by Pierre Lindenbaum ♦ 113k
1
vote
1
answer
363
views
1
answer
Opinion on Quality basecall threshold to use
vcf filter quality qual written 10 months ago by ricfoz • 20
0
votes
1
answer
668
views
1
answer
filter multisample vcf based on per-sample average read depth
vcf filter variant call read depth written 10 months ago by agathejouet • 0 • updated 10 months ago by Pierre Lindenbaum ♦ 113k
8
votes
0
answers
924
views
0
answers
Tool: Sequence filtration tool
fasta filter sequence tool written 19 months ago by Eslam Samir • 100
1
vote
1
answer
342
views
1
answer
problem to filter freq from vcf produced with varscan
vcf filter varscan2 snpsift written 11 months ago by fabbri.marco • 0
2
votes
1
answer
466
views
1
answer
vcf filter dp
vcf filter dp written 11 months ago by chengyi31000 • 0 • updated 11 months ago by RamRS ♦ 18k
1
vote
2
answers
591
views
2
answers
vcf file filter
vcf filter snps minor allele homozygotes written 12 months ago by DataFanatic • 110 • updated 12 months ago by Pierre Lindenbaum ♦ 113k
0
votes
0
answers
702
views
0
answers
Help - GATK Variant filtration by AD/DP not working
vcf gatk variantfiltration filter written 12 months ago by manimozhi26 • 0
48
votes
5
answers
31k
views
31 follow
5
answers
Extract Sub-Set Of Regions From Vcf File
vcf genome tabix filter written 6.4 years ago by Rubal7 • 700 • updated 12 months ago by geocarvalho • 80
0
votes
1
answer
724
views
1
answer
CNVnator output filter
filter cnv written 13 months ago by zhang248 • 30 • updated 13 months ago by ChrisJ • 0
2
votes
0
answers
694
views
0
answers
Extract reads from specific target in .bam file
filter bam written 13 months ago by Picasa • 380
1
vote
1
answer
501
views
1
answer
Filtering by specific genotype VCF
vcf filter genotype written 16 months ago by virpatel3 • 20 • updated 14 months ago by agata88 • 740
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