galantelab / sideRETRO
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Thiago L. A. Miller 
Version 0.11.0

3441 of 3548 relevant lines covered (96.98%)

1791.43 hits per line

Relevant lines Covered
3548 RELEVANT LINES 3441 COVERED LINES
1791.43 HITS PER LINE
Source Files on rtc
Coverage ∆ File Lines Relevant Covered Missed Hits/Line

Recent builds

Builds Branch Commit Type Ran Committer Via Coverage
221 rtc Version 0.11.0 push Thiago L. A. Miller travis-ci pending completion  
217 rtc FIX: check_sider_cluster.c: flag == 0 push thiago-miller travis-ci pending completion  
216 rtc ADD: process_sample.c: --deduplicate option push thiago-miller travis-ci pending completion  
215 rtc ADD: merge_call.c (merge_call): Run retrocopy step push thiago-miller travis-ci pending completion  
214 rtc ADD: cluster.c (prepare_query_stmt): test type The dedup step set the alignment type to ABNORMAL_NONE flag if the read is a duplication. So, in the clustering step, it is necessary to avoid using those duplicated reads push thiago-miller travis-ci pending completion  
213 rtc ADD: dedup.c interface: Remove duplicated reads Add deduplication capability. Remove duplicated reads but one, which is called the primary read. Other tools, specilized in remove duplications, use some metric to choose the primary reads. For us, ... push thiago-miller travis-ci pending completion  
212 rtc ADD: abnormal.c (abnormal_classifier): Dup filter Add filter for PCR or optical duplicated reads push thiago-miller travis-ci pending completion  
211 rtc FIX: cluster.c, retrocopy.c (qname, source_id idx) There is the possibility that different BAM files share reads with the same query name. In order to avoid a mess to find the right mate, use the source_id along with qname when required to match ... push thiago-miller travis-ci pending completion  
210 rtc ADD: retrocopy.c (clean_retrocopy_tables) push thiago-miller travis-ci pending completion  
209 rtc ADD: retrocopy.c (calculate_orientation) push thiago-miller travis-ci pending completion  
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