Misconceptions about core linguistic concepts like mutable variables, mutable compound data, and their interaction with scope and higher-order functions seem to be widespread. But how do we detect them, given that experts have blind spots and may not realize the myriad ways in which students can misunderstand programs? Furthermore, once identified, what can we do to correct them? In this paper, we present a curated list of misconceptions, and an instrument to detect them. These are distilled from student work over several years and match and extend prior research. We also present an automated, self-guided tutoring system. The tutor builds on strategies in the education literature and is explicitly designed around identifying and correcting misconceptions. We have tested the tutor in multiple settings. Our data consistently show that (a) the misconceptions we tackle are widespread, and (b) the tutor appears to improve understanding.

When novice programming students already know one programming language and have to learn another, what issues do they run into? We specifically focus on one or both languages being functional, varying along two axes: syntax and semantics. We report on problems, especially persistent ones. This work can be of immediate value to educators and also sets up avenues for future research.

SUMMARY: Pan-genome analyses are routinely carried out for bacteria to interpret the within-species gene presence/absence variations (PAVs). However, pan-genome analyses are rare for eukaryotes due to the large sizes and higher complexities of their genomes. Here we proposed EUPAN, a eukaryotic pan-genome analysis toolkit, enabling automatic large-scale eukaryotic pan-genome analyses and detection of gene PAVs at a relatively low sequencing depth. In the previous studies, we demonstrated the effectiveness and high accuracy of EUPAN in the pan-genome analysis of 453 rice genomes, in which we also revealed widespread gene PAVs among individual rice genomes. Moreover, EUPAN can be directly applied to the current re-sequencing projects primarily focusing on single nucleotide polymorphisms. AVAILABILITY AND IMPLEMENTATION: EUPAN is implemented in Perl, R and C ++. It is supported under Linux and preferred for a computer cluster with LSF and SLURM job scheduling system. EUPAN together with its standard operating procedure (SOP) is freely available for non-commercial use (CC BY-NC 4.0) at http://cgm.sjtu.edu.cn/eupan/index.html . CONTACT: [email protected] or [email protected]. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.