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MAtCHap
can you share the new vcf file?
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MAtCHap
in the header there are no ## and # in all lines. Can you make a snapshot of 'head ctg92.vcf'.
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MAtCHap
can you show me the header?
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MAtCHap
The VCF files are not properly formatted. They do not have mandatory header lines. alberto@neo:~/HaplotypeAssembly/DataKlopp> head ctg4.vcf ctg4 31 . T C 1011.1 . AB=0.483871;ABP=3.22044;AC=1;AF=0.5;AN=2;AO=45;CIGAR=1X;DP=93;DPB=93;DPRA=0;EPP=3.05855;EPPR=3.73412;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=232.814;PAIRED=0.733333;PAIREDR=0.770833;PAO=0;PQA=0;PQR=0;PRO=0;QA=1619;QR=1677;RO=48;RPL=1;RPP=92.2337;RPPR=75.3927;RPR=44;RUN=1;SAF=23;SAP=3.05855;SAR=22;SRF=28;SRP=5.9056;SRR=20;TYPE=snp...
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MAtCHap
Ok. Thank You. It could be a problem of convergence. Could You kindly provide me the .frg and .vcf files?
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MAtCHap
ok....frg files look correct....You stopped the process after 48 hours....network files were generated?
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MAtCHap
may I see the header of the .frg file? How did you obtain the .frg file? Did you use the extractHAIRS from HAPCUT2 tool?
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EXCAVATOR2tool
Hi, this error comes when there's inconsistency with the target you have used. It's...
Personal Data
- Username:
- albertomagi
- Joined:
- 2012-07-31 07:20:43
- Location:
- Florence / Italy / CET
- Gender:
- Male
Projects
This is a list of open source software projects that Alberto Magi is associated with:
- AUDACITY AUtozygosity iDentification And ClassIfication Tool Last Updated:
- EXCAVATOR-tool Tool for detecting CNVs from whole-exome sequencing data Last Updated:
- EXCAVATOR2tool Enhanced tool for detecting CNVs from whole-exome sequencing data Last Updated:
- GASOLINE Germline And SOmatic structuraL varIants detectioN and gEnotyping Last Updated:
-
H3M2 H3M2: Detection of ROH from whole-exome sequencing data Last Updated:
- MAtCHap Last Updated:
- NanoGLADIATOR Real-time detection of copy number alterations from nanopore data. Last Updated:
- PoreMeth Last Updated:
- PoreMeth PoreMeth is a tool for the identification of DMRs from Nanopore data. Last Updated:
- RAREVATOR Tool for the detection of variants in rare reference allele loci Last Updated:
- SLMSuite A suite of algorithms for segmenting genomic profiles Last Updated:
- XCAVATOR A tool for the detection of CNV/CNA from whole-genome sequencing data. Last Updated:
